Delhi High Court
M/S Kanika Exports vs Union Of India & Ors on 18 April, 2026
Author: Prathiba M. Singh
Bench: Prathiba M. Singh
$~
* IN THE HIGH COURT OF DELHI AT NEW DELHI
Reserved on: 20th December, 2025
Pronounced on: 18th April, 2026
Uploaded on: 18th April, 2026
+ W.P.(C) 12512/2021
M/S KANIKA EXPORTS .....Petitioner
Through: Mr. N.K. Sharma & Mr. Deepak
Gautam, Advs.
Mr. Rakesh Kumar, Adv.
versus
UNION OF INDIA & ORS. .....Respondents
Through: Mr. Aditya Singla SSC CBIC with Ms.
Arya Suresh Nair, Adv.
Mr. Virender Pratap Singh Charak,
Ms. Shubhra Parashar & Ms. Priya
Shukla, Advs.
+ W.P.(C) 17538/2022
M/S MALIK SEASONING AND SPICES PRIVATE LIMITED
.....Petitioner
Through: Mr. Tarun Gulati, Sr. Adv. with Mr.
Dinesh Parashar, Advs.
Mr. Rakesh Kumar, Adv.
versus
COMMISSIONER OF GOODS AND SERVICE TAX.....Respondent
Through: Mr. Aditya Singla SSC CBIC with Ms.
Arya Suresh Nair, Adv.
CORAM:
JUSTICE PRATHIBA M. SINGH
JUSTICE SHAIL JAIN
JUDGMENT
Prathiba M. Singh, J.
1. This hearing has been done through hybrid mode
2. The question that has arisen in these petitions is whether the Petitioners’
refund applications were filed within the prescribed period of limitation or
not. Although at first glance, the issue appears to be quite simple, it has been
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rendered complex due to various interlinked and interconnected provisions,
in the GST regime, including amendments introduced in the statute. Before
examining the legal framework, it is necessary to set out the relevant facts.
Factual Background
Facts in W.P.(C) 12512/2021
3. The Petitioner is a partnership firm engaged in the business of
readymade garments and holds a GST registration bearing GSTIN No.
07AAKFK6680N1ZL.
4. At the time of export of goods, it did not pay any tax and hence, the
supplies were zero-rated supplies of goods, exported out of India. After the
exports were effected, the Petitioner filed a refund application dated 29th
March, 2020, claiming refund of Input Tax Credit (hereinafter, ‘ITC’)
accumulated as on 31st March, 2018 amounting to Rs.21,88,802/-, for the
period July, 2017 to March, 2018.
5. Pursuant thereto, a Show Cause Notice dated 22 nd April, 2020 was
issued by the Deputy Commissioner, Central Goods and Services Tax
(hereinafter, ‘CGST’) to the Petitioner in respect of the refund application
dated 29th March, 2020. Vide the said Show Cause Notice, the Petitioner was
called upon to show cause as to why the refund claim should not be rejected.
In response, the Petitioner filed a reply dated 30th April, 2020 and contested
on various grounds.
6. The Deputy Commissioner, CGST, Delhi vide the Order-in-Original
dated 14th May, 2020 (hereinafter, ‘OIO-1’), rejected the refund claim of the
Petitioner. Aggrieved by the said order, an appeal was preferred by the
Petitioner before the Appellate Authority. Vide the Order-in-Appeal dated 14th
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July, 2021 (hereinafter, ‘OIA-1’), the Additional Commissioner CGST
Appeals-II, Delhi rejected the appeal of the Petitioner and upheld OIO-1.
7. The grievance of the Petitioner is that both the Adjudicating Authority
as also the Appellate Authority have not applied Section 54(3) of the Central
Goods and Services Tax Act, 2017 (hereinafter, ‘CGST Act‘), which
specifically deals with unutilised ITC, while considering the refund claim of
the Petitioner. Hence, the present petition has been filed by the Petitioner
assailing OIO-1 and OIA-1, as also seeking a direction to the GST Department
to process Petitioner’s refund claim of the accumulated ITC.
Reasoning by the Adjudicating Authority and the Appellate Authority
8. The Adjudicating Authority framed the following two issues in OIO-1:
(i) whether the refund claim was filed by the Petitioner before the
appropriate jurisdictional authority or not;
(ii) whether the refund claim was filed by the Petitioner within time or
not;
9. On the first issue, the Adjudicating Authority held that since the
principal place of business of the Petitioner was at M-36, Greater Kailash-II,
South Delhi-110048, it had filed the refund claim before the correct
jurisdictional authority i.e., Central Goods and Service Tax, Delhi South
Commissionerate, Okhla Division. Accordingly, no infirmity was found on
the issue of jurisdiction.
10. On the issue of limitation, the Adjudicating Authority took into
consideration Explanation (2)(a) to Section 54 of the CGST Act, wherein the
relevant date in case of goods exported out of India, is the date of exports.
The Adjudicating Authority considered that in the present case, the exports
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were effected under shipping bill bearing No. 9062122 dated 4th October,
2017, exported vide Export General Manifest (hereinafter, ‘E.G.M.’) dated 6th
October, 2017 and shipping bill bearing No. 3533626 dated 16th March, 2018
exported vide E.G.M. dated 20th March, 2018. Proceeding on this basis, the
Adjudicating Authority computed the limitation period of two years from the
relevant date of 6th October, 2017 and 20th March, 2018 i.e., date of exports
and rejected the refund claim of the Petitioner dated 29th March, 2020, to the
tune of Rs.21,88,802/- , as being time-barred. The operative portion of the
OIO-1 is set out below:
“ORDER
I hereby reject an amount of INR Rs. 21,88,802/-
(Rs.21,88,802/-SGST) (Rs. Twenty One Lakh Eighty
Eight Thousand Eight Hundred and Two only) to M/s
Kanika Exports, M-36, Greater Kailash-II, South
Delhi-110048, having GSTIN: 07AAKFK6680N1ZL,
ARN No. AA07073200412031 dated 29-03-2020 as
refund of ITC on export of goods without payment of
IGST under Section 16(3)(a) of the IGST Act, 2017 &
Section 54(1) & (3) of the CGST Act, 2017 and rules
made there under.”
11. Vide the OIA-1, the Appellate Authority concurred with the reasoning
of the Adjudicating Authority and upheld the rejection of the refund claim of
the Petitioner on the same ground of it being time-barred. The operative
portion of OIA-1 reads as under:
“ORDER
In view of above discussions, analysis and statutory
provisions cited in para 6, the appeal filed by the
appellant does not hold merit and deserve to be
rejected. Hence, the appeal is hereby disposed off, in
terms of Section 107(12) of CGST Act,2017 .”
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Signing Date:18.04.2026
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Facts in W.P.(C) 17538/2022
12. The Petitioner is engaged in the manufacturing and trading of spices
and seasonings. It was granted a GST registration bearing GSTIN No.
07AAECM6090R1ZR, w.e.f. 1st July, 2017.
13. It filed an application for refund dated 28th March, 2021, for the period
from July 2017 to March 2018, claiming a refund of Rs. 6,61,234/- under the
category of ITC accumulated due to inverted duty structure. In addition, the
Petitioner also filed another refund application dated 30th March, 2021, for the
period from April, 2018 to March, 2019, claiming a refund of Rs. 17,46,013/-
under the same category i.e., ITC accumulated due to inverted duty structure.
For ease of reference, the details of the refund applications are tabulated
herein below:
Year Refund Amount Date of filing of
Refund Application
July 2017- 6,61,234/- 28th March, 2021
March 2018
April 2018- 17,46,013/- 30th March, 2021
March 2019
14. Pursuant thereto, Show Cause Notices dated 17th May, 2021 and 20th
May, 2021 were issued by the Adjudicating Authority in respect of the refund
applications dated 28th March, 2021 and 30th March, 2021, respectively,
calling upon the Petitioner to show cause as to why the said refund claims
should not be rejected. However, no reply was filed by the Petitioner to the
said notices.
15. Thereafter, the Adjudicating Authority vide Refund orders dated 30th
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June, 2021 (hereinafter, ‘refund orders’) had rejected both the refund
applications of the Petitioner. Aggrieved thereby, the Petitioner preferred two
appeals before the Appellate Authority. Both the appeals were dismissed by a
common Order-in-Appeal dated 26th August, 2022 passed by the Joint
Commissioner, CGST Appeals-I, Delhi (hereinafter, ‘OIA-2’)
16. Aggrieved by the refund orders as also the OIA-2, the Petitioner has
filed the present petition seeking, inter alia, setting aside of the said orders.
Reasoning by the Adjudicating Authority and the Appellate Authority
17. The Adjudicating Authority, vide the refund orders considered that the
due date for claiming refund of unutilised ITC under clause (ii) of the first
proviso to Section 54(3) of the CGST Act, would be the due date for
furnishing of returns under Section 39 of the CGST Act, for the period in
which such claim for refund arises. Notably, this is the relevant date as per
the amended Explanation 2(e) to Section 54 of the CGST Act. Accordingly,
it was observed that the restriction of two years for filing of the refund
application applies from the relevant date.
18. Based on the said reasoning, it was also observed that the Petitioner
failed to furnish a proper bifurcation of the refund claim to demonstrate
whether any portion fell within the prescribed limitation period. Accordingly,
the entire refund claim was treated as time-barred.
19. Further, the Adjudicating Authority also noted that pursuant to
Notification No. 35/2020-CT dated 3rd April, 2020 and Notification No.
55/2020-CT dated 27th June, 2020, the time limit for compliances stood
extended only up to 30th August, 2020. Since the refund applications were
filed on 28th March, 2021 for the period July 2017 to March 2018, and on 30th
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March, 2021 for the period April 2018 to March 2019, it remained beyond
the extended limitation period and was therefore not admissible. The
operative portion of the refund orders is set out below:
For the refund application dated 28th March, 2021:
“8. In view of the above, I find that the refund amount
Rs. 6,61,234/- (Rupees Six Lakh Sixty One Thousand
Two Hundred Thirty Four Only) [IGST Rs. 2,19,780/-,
CGST Rs. 4,41,454/- and SGST Rs. 0/-] is eligible for
rejection. I hereby reject an amount of Rs. 6,61,234/-
(Rupees Six Lakh Sixty One Thousand Two Hundred
Thirty Four Only) [IGST Rs. 2,19,780/-, CGST Rs.
4,41,454/- and SGST Rs. 0/-] to M/s Malik Seasoning
and Spices Private Limited (Legal Name: Malik
Seasoning and Spices Private Limited), having GSTIN
No. 07AAECM6090R1ZR, dated 01-07-2017, under
sub-section (8) of Section 54 of the CGST Act, 2017.”
For the refund application dated 30th March, 2021:
“8. In view of above, I find that refund amount Rs.
17,46,013/- (Rupees Seventeen Lakh Forty Six
Thousand and Thirteen Only) (IGST Rs. 0/-, CGST Rs.
8,73,007/- and SGST Rs. 8,73,006/-) is eligible for
rejection. I hereby reject an amount of Rs. 17,46,013/-
(Rupees Seventeen Lakh Forty Six Thousand and
Thirteen Only) (IGST Rs. 0/-, CGST Rs. 8,73,007/-and
SGST Rs. 8,73,006/-) to M/s Malik Seasoning and
Spices Private Limited (Legal Name: Malik Seasoning
and Spices Private Limited), having GSTIN No.
07AAECM6090RIZR Dt.01.07.2017 under sub-
section (8) of Section 54 of the CGST Act, 2017.”
20. The Appellate Authority, vide OIA-2 affirmed the findings of the
Adjudicating Authority and upheld the rejection of the refund claims of the
Petitioner on the ground that the same were time-barred. The relevant portion
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Signing Date:18.04.2026
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of the OIA-2 is set out below:
“[…]8.2.1 I find that relevant date for filing refund
claim of accumulated ITC on account of inverted tax
structure is defined in clause (e) to explanation (2) to
Section 54[l4] of CGST Act, 2017 which reads as “(e)
in the case of refund of unutilised input tax credit under
subsection (3), the end of the financial year in which
such claim for refund arises”. The clause (e) to
explanation (2) to Section 54(14) of CGST Act 2017 was
amended by section 23 of CGST (Amendment) Act 2018
with effect from 1st February 2019 which now reads as
“(e) in the case of refund of unutilised input tax credit
under clause (ii) of the first proviso to sub-section (3),
the due date for furnishing of return under section 39 for
the period in which such claim for refund arises;
8.2.1.1 The amended section 54 of CGST Act 2017
does not take away or impairs vested rights under
existing laws but only shortens the time period for
filing refund claim. A registered person still had
sufficient time period in respect of refund claim
pertaining to period July 17. Every refund claim filed
on or after 1 Feb 2019 will be governed by amended
section 54 of CGST Act 2017 even if the refund claim
pertains to period prior to 1 Feb 2019.
8.2.1.2 The refund claim for the period July 2017 to
March 2018 filed on 28.03.2021 is time barred.
Similarly the refund claim filed by the Appellant for
the period April 2018 to March 2019 on 30.03.2021 is
also time barred and further the Appellant did not non-
submitted bifurcation of relevant details for the period
if any, which is within prescribed time.
XXX
9. In view of the above, I pass the following order:
ORDER
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Signing Date:18.04.2026
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The Appeals filed by the Appellant are rejected. The
refund rejection orders ZX0707210010520 dated
01.07.2021 amounting to Rs. 6,61,234/- for the period
July 2017 to March 2018 and ZU0707210004731 dated
01.07.2021 for Rs. 17,46,013/- for the period April 2018
to March 2019 passed by the Adjudicating Authority are
upheld.”
Submissions on behalf of the parties
Submissions on behalf of the Petitioner in W.P.(C) 12512/2021
21. The contention of the ld. counsel for the Petitioner is that, the refund
claim of the Petitioner is not time-barred, as the case of the Petitioner would
be covered under the first proviso to Section 54 (3) of the CGST Act. The
further contention is that the relevant date, in the case of refund of unutilised
ITC would be in terms of the unamended Explanation 2(e) to Section 54 of
the CGST Act. The said provision construes the relevant date to be the end of
the financial year in which such claim for refund arises.
22. In view thereof, the case of the Petitioner is that it was entitled to file
for refund at the end of the financial year in which the claim for refund arises.
The financial year in question is 2017-2018. In the present case, the end of
the financial year would be on 31st March, 2018, and, therefore, the limitation
for filing the same ended only on 31st March, 2020.
23. It is submitted that the refund application had been filed two days prior
to the said date i.e., on 29th March, 2020. However, OIO-1 as also OIA-1 have
held that the refund application is belated and have rejected the same.
24. The submission of Mr. N.K. Sharma, ld. Counsel for the Petitioner is
that the authorities have incorrectly taken into consideration Explanation 2(a)
to Section 54 of the CGST Act. It is submitted that the period of limitation
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ought to be calculated from the end of the financial year, in terms of Section
54(3) read with unamended Explanation 2(e).
25. It is further submitted by Mr. N.K. Sharma that the amendment to
Explanation 2(e) to Section 54 of the CGST Act, which came into effect from
1st February, 2019, would not be applicable in the present case, as the refund
application was filed for the financial year 2017-2018. It is contended that the
said amendment did not have retrospective effect, therefore, the said clause
cannot be applied retrospectively.
26. It is also submitted that the case of the Petitioner is not only covered
under the category of ‘refund arising out of exports’, however, it is also
covered under the category of ‘refund of unutilised ITC arising out of zero-
rated supplies i.e., exports’.
27. Therefore, it is his submission that the appropriate provision would be
Section 54(3) read with unamended Explanation 2(e) of the CGST Act.
28. Ld. Counsel for the Petitioner places reliance upon the decision of the
Supreme Court in ‘Government of India vs. Indian Tobacco Association‘,
2005 (7) SCC 396. The relevant portion of the said decision is set out below:
“15. The word “substitute” ordinarily would mean “to
put (one) in place of another”; or “to replace”. In
Black’s Law Dictionary, Fifth Edition, at page 1281, the
word “substitute” has been defined to mean “To put in
the place of another person or thing” or “to exchange”.
In Collins English Dictionary, the word
“substitute” has been defined to mean “to serve or cause
to serve in place of another person or thing”;
“to replace (an atom or group in a molecule) with
(another atom or group)”; or “a person or thing that
serves in place of another, such as a player in a game
who takes the place of an injured colleague”.
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16. By reason of the aforementioned amendment no
substantive right has been taken away nor any penal
consequence has been imposed. Only an obvious
mistake was sought to be removed thereby.
17. There cannot furthermore be any doubt
whatsoever that when a person is held to be eligible to
obtain the benefits of an exemption notification, the
same should be liberally construed.
XXX XXX XXX
24. In Ramkanali Colliery of BCCL vs. Workmen by
Secy., Rashtriva Colliery Mazdoor Sangh and Another
[(2001) 4 SCC 236], a Division Bench of this Court
observed:
“What we are concerned with in the present case is the
effect of the expression “substituted” used in the context
of deletion of sub-sections of Section 14, as was
originally enacted. In Bhagat Ram Sharma vs. Union of
India, this Court stated that it is a matter of legislative
practice to provide while enacting an amending law,
that an existing provision shall be deleted and a new
provision substituted. If there is both repeal and
introduction of another provision in place thereof by a
single exercise, the expression “substituted” is used.
Such deletion has the effect of the repeal of the existing
provision and also provides for introduction of a new
provision. In our view there is thus no real distinction
between repeal and amendment or substitution in such
cases. If that aspect is borne in mind, we have to apply
the usual principles of finding out the rights of the
parties flowing from an amendment of a provision if
there is a vested right and that right is to be taken away
necessarily the law will have to be retrospective in
effect and if such a law retrospectively takes away such
a right, it can no longer be contended that the right
should be enforced. However, that legal position, in the
present case, does not affect the rights of the parties as
such.”
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25. In Zile Singh vs. State of Haryana & Ors. [(2004) 8
SCC 1] wherein the effect of an amendment in the
Haryana Municipal Act, 1973 by Act No.15 of 1994
whereby the word “after” was substituted by the word
“upto” fell for consideration; wherein Lahoti, C.J.
speaking for a three-Judge Bench held the said
amendment to have a retrospective effect being
declaratory in nature as thereby obvious absurdity
occurring in the first amendment and bring the same in
conformity with what the legislature really
intended to provide was removed, stating:
“23. The text of Section 2 of the Second Amendment
Act provides for the word “upto” being substituted
for the word “after”. What is the meaning and effect
of the expression employed therein – “shall be
substituted”?.
27. The doctrine of fairness also is now considered to be
a relevant factor for construing a statute. In a
case of this nature where the effect of a beneficent
statute was sought to be extended keeping in view the
fact that the benefit was already availed of by the
agriculturalists of tobacco in Guntur, it would be
highly unfair if the benefit granted to them is taken
away, although the same was meant to be extended to
them also. For such purposes the statute need not be
given retrospective effect by express words but the
intent and object of the legislature in relation thereto
can be culled out from the background facts.”
29. Relying on the said decision, the contention of the Petitioner is that the
substitution made in Explanation 2(e) to Section 54 of the CGST Act, w.e.f.
1st February, 2019, takes away the right of the Petitioner to claim the refund
of unutilized ITC, which is an incentive for the Petitioner. Hence, it is stated
that the substitution cannot be used to deny the substantive export benefit to
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the Petitioner.
30. Further, Mr. Dinesh Parashar, ld. Counsel for the Petitioner places
reliance upon the judgment of the Bombay High Court in W.P. (C) 5600/2021
titled ‘M/s Babasaheb Keda Shetkari Sahakari Soot Girni limited vs. The
State of Maharashtra through its Principal Secretary Finance & Ors.’ to
contend that the said decision is squarely applicable to the present case. It is
submitted that in the said decision, the Court was considering the nature of
the amendment to Explanation 2(e) to Section 54 of the CGST Act and it has
been held that the amendment is prospective in nature.
31. Additionally, reliance is also placed upon the decision of the Supreme
Court in ‘HCL Ltd. vs. Collector of Customs‘ 2001 (130) E.L.T. 405 (SC),
to submit that the benefit of unamended Explanation 2(e), ought to be
extended to the Petitioner. It is stated that in case of two beneficial provisions,
the tax payer has the discretion to opt for a more beneficial provision.
32. Finally, Mr. Parashar, ld. Counsel for the Petitioner, argues that the
accrued right to an assessee cannot be taken away by bringing an amendment,
in this manner, and curtailing the period of limitation.
Submissions on behalf of the Department in W.P.(C) 12512/2021
33. At the outset, the case of the Department is that the refund claim of the
Petitioner is time-barred as the relevant date in case of the Petitioner is
covered in terms of Section 54(1) read with Explanation 2(a) of the CGST
Act.
34. Mr. Aditya Singla, ld. SSC for the GST Department has vehemently
urged that the period of limitation ought to be calculated from the relevant
date, which is the date of exports i.e., the date on which the ship/aircraft, in
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which the goods are loaded leaves India.
35. He also places reliance upon the definition of ‘Input Tax’ and ‘Input
Tax credit’ under Section 2(62) and 2(63) of the CGST Act.
36. According to him, Explanation 2(e) to Section 54 of the CGST Act has
no application in the present case, due to the following reasons:
(i) It is stated that in case of zero-rated supplies made without payment of
tax, where exports are involved, Explanation 2(a) to Section 54 of the
CGST Act would be applicable. Reliance is also placed upon the
meaning of zero-rated supply, as contained in Section 16 of the
Integrated Goods and Services Tax Act, 2017 (hereinafter, ‘IGST Act‘),
which states that zero-rated supplies relate to export of goods or
services from India or to a Special Economic Zone (hereinafter, ‘SEZ’)
or SEZ unit.
(ii) In the present case, goods have been exported out of India, thereby, the
relevant provision would be Explanation 2(a) to Section 54 of the
CGST Act and the relevant date would be the date on which the export
took place.
(iii) Section 54(1) read with Explanation 2(a) of the CGST Act specifically
deals with exports, whereas Section 54(3) read with unamended
Explanation 2(e) was a generic provision dealing commonly with both
zero-rated supplies and inverted tax structure. In case of ambiguity, the
specific provision shall prevail over the generic provision. Further, non-
application of Section 54(1) read with Explanation 2(a) of the CGST
Act, when exports are involved, will make the said clause redundant.
(iv) It is also stated that Explanation 2(e) to Section 54 of the CGST Act
was amended vide Central Goods and Services Tax (Amendment) Act,
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2018 dated 30th August, 2018 and came into effect on 1st February,
2019. The amended provision specifically restricted the application of
the provision to cases of refund of unutilised ITC under clause (ii) of
the first proviso to Section 54(3) of the CGST Act viz., transactions of
inverted duty structure. Since the refund application was filed on 29th
March, 2020 i.e., after the amendment came into effect, the unamended
Explanation 2(e) to Section 54 of the CGST Act would not be
applicable.
(v) The amendment to Explanation 2(e) to Section 54 of the CGST Act is
clarificatory in nature, which can be seen from the fact the amendment
is being ‘substituted’ in place of the older provision and not merely
superseded. Therefore, the amendment shall be applicable
retrospectively. In this context, reliance is placed upon the decision of
the High Court of Madras in ‘Doosan Infracore India Pvt. Ltd. vs.
Assistant Commissioner of GST & C. Ex. Chennai’ 2020 (374) ELT
374 (Mad) to argue that whenever there is substitution of a provision,
the old provision ceases to exist, and the provision which would be
applicable on the date of the filing of the application, would be the
relevant provision. The limitation would have to be construed on the
said basis.
(vi) Furthermore, it is also contended that insofar as limitation is concerned,
it being a rule of procedure, the applicable rule would be the one that
would be in operation on the date when the refund application is filed.
In this context, reliance is placed upon the following judgments:
• Baijnath vs. Dulari Hajjam (1913) ILR 35 ALL 227
• Thirumalai Chemicals Limited vs. Union of India and othersSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 15 of 43
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(2011) 6 SCC 739
• Subodh Chandra Mitra vs. Kanai Lal Mukherjee (1966)
SCC Online Cal 89
• Union Of India & Ors. vs. Uttam Steel Limited (2015) 13
SCC 209
37. Therefore, it is submitted that the limitation would have to be construed
from the relevant date of exports, when the goods under the relevant shipping
bill are loaded and leave India. By that standard, insofar as the shipping bill
bearing No. 3533626 dated 16th March, 2018 exported vide E.G.M. dated 20th
March, 2018 is concerned, the application would be within time. However,
insofar as the shipping bill bearing No. 9062122 dated 4th October, 2017,
exported vide E.G.M. dated 6th October, 2017 is concerned, the application
would be beyond the prescribed period of limitation.
38. In the former case, the submission of Mr. Singla, ld. Counsel is that,
due to the orders passed by the Supreme Court in SMW (c) No. 3/2020 titled
In Re: Cognizance for extension of Limitation, read with Notification
No.35/2020 dated 3rd April, 2020, Notification 55/2020 dated 27th June, 2020
and Notification No 13/2022 dated 5th July, 2022, the period from 20th March,
2020 to 31st August, 2020 was directed to be excluded while computing the
period of limitation. Since the limitation in the present case would have
expired on 20th March, 2020, falling within the excluded period, the benefit
of such exclusion would be applicable, thereby rendering the claim within
time. However, in the latter case, the exclusion shall not come to the aid of
the Petitioner, as the two year period came to an end in October, 2019 itself.
39. Additionally, Mr. Aditya Singla, ld. SSC submits that the manner in
which Explanation 2(e) to Section 54 of the CGST Act is to be read, is noSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 16 of 43
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longer res integra. The same has been decided by the ld. Single Judge of the
Madras High Court in ‘Gillette Diversified Operations pvt. Ltd. v. The Joint
Commissioner of GST and Central Excise (Appeals-II)'(2025) 28 Centax
263 (Mad.). In the said decision, ld. Single Judge was considering the same
very provision and it was held that the amendment is clarificatory in nature
and Explanation 2(e) to Section 54 of the CGST was not relevant as the
limitation had to be counted from the date of exports.
40. It is further submitted that a similar view was also taken by the Gujarat
High Court in ‘Nitrex Chemicals India Ltd v. Assistant Commissioner Goods
And Service Tax‘ (2025) 27 Centax 381 and ld. Single Judge of Madras High
Court in ‘M/s Tulip Nilgiris Export Pvt. Ltd. v. Additional Commissioner of
Central Taxes and Central Excise’ (2024) 14 Centax 285 (Mad.). Thus, it
is submitted that since beginning, all exports have to be governed only by
Explanation 2(a) to Section 54 of the CGST Act and not by Explanation 2(e)
to Section 54 of the CGST Act.
41. Furthermore, the decision by the High Court of Bombay in M/s
Babasaheb Keda Shetkari Sahakari Soot Girni limited (Supra) has been
refuted by Mr. Aditya Singla, ld. SSC. He relies upon a copy of the said writ
petition filed before the Bombay High Court. In this regard, he relies upon
paragraph 6 to 8, from where it becomes clear that the Petitioner was trying
to upload the refund form within time and got a ticket and it was in that context
that the said decision was rendered. Therefore, it is urged that the facts are
clearly distinguishable from the present case.
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Submissions on behalf of the Petitioner in W.P.(C) 17538/2022
42. The case of the Petitioner is that, in so far as the inter-state supplies are
concerned, the Petitioner is entitled to refund of unutilised ITC in terms of
clause (ii) of first proviso to Section 54(3) read with Explanation 2(e) of the
CGST Act.
43. The contention is that the refund claim of the Petitioner is within the
limitation period of two years, in terms of Section 54(1) read with unamended
Explanation 2(e) of the CGST Act.
44. The further case of the Petitioner is that the amendment to Explanation
2(e) to Section 54 of the CGST Act, which was introduced w.e.f. 1st February,
2019, would not be applicable to the Petitioner, as the refund claims pertain
to period 2017-2018 and 2018-2019 i.e., prior to the enactment of the
amended provision.
45. It is also stated that, as per the relevant date in terms of the unamended
Explanation 2(e) of the CGST Act, in case of refund of unutilised ITC, the
relevant date would be the end of the financial year.
46. In view thereof, the relevant date for the refund claim for the period of
July, 2017 to March, 2018 starts from 31st March, 2018, and for the period
April, 2018 to March, 2019, the same would be 31st March, 2019. In the
former case, the two years from the relevant date would be 31st March, 2020.
It is further stated that, in the interregnum, the limitation period was extended
by the Supreme Court by In Re: Cognizance for extension of Limitation
(Supra) vide order dated 8th March, 2021, wherein period from 15th March,
2020 to 14th March, 2021 was to be excluded and a grace period of 90 days
was also to be provided. Accordingly, in the former case, the refund claim
filed on 28th March, 2021 was within the period of limitation.
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47. In the latter case, two years from the relevant date would be 31st March,
2021 and the refund claim was filed on 30 th March, 2021. Hence, the same
was also filed within the period of limitation.
48. Thus, it is contended that the Department has erroneously applied the
amendment to Explanation 2(e) to Section 54 of the CGST Act
retrospectively, and on that basis, rejected Petitioner’s refund claims as being
time-barred, vide the refund orders and OIA-2.
Submission on behalf of the Department in W.P.(C) 17538/2022
49. The case of the Department is that, since the refund applications were
filed by the Petitioner in 2021, the relevant date would be as per the amended
Explanation 2(e) of the CGST Act.
50. In that context, the relevant date would be the due date for furnishing
the return under Section 39 of the CGST Act, for the period in which such
claim arises.
51. It is also the case of the Department that the ‘amended’ Explanation
2(e) to Section 54 of the CGST Act would be applicable in the present case,
thus, the refund claims of the Petitioner are barred by limitation.
52. Further, it is also stated that ‘substitution’ of a provision results in
repeal of the earlier provision, and its replacement with a new provision. In
this regard, reliance is placed upon the following judgements:
• Doosan Infracore India Pvt. Ltd. vs. Assistant Commissioner of GST
& C. Ex. Chennai 2020 (374) ELT 374 (Mad)
• State of Rajasthan v. Mangilal Pindwal (1996) 5 SCC 60
• Zile Singh v. State of Haryana (2004) 8 SCC 1
• Gottumukkala Venkata Krishamraju v. Union of India & Ors.
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(2019) 17 SCC 590
53. Furthermore, it is also contended that the Petitioner did not file the
refund applications in a bifurcated manner for each month, due to which also
the refund applications of the Petitioner were rejected.
54. During subsequent hearings, Mr. Tarun Gulati, ld. Sr. Counsel and Mr.
Rakesh Kumar, ld. Counsel had appeared to assist the Court.
55. Mr. Rakesh Kumar, ld. Counsel had placed reliance upon a decision of
the Co-ordinate Bench of this Court in W.P.(C) 2763/2013 titled ‘M/s Bajaj
Overseas Impex v. The Special Commissioner-I & Anr. & M/s Aarco
Electronics (Delhi) v. The Addl. Commissioner VAT & Anr. to argue that
the benefit of the provision, which had exempted payment of pre-deposit, in
the said cases, was extended to the assessee on the basis of the date of the
filing of the return, prior to the introduction of the third proviso to Section
74(1) of the Act. Based on the said case, he submits that if a benefit is provided
vide a Notification/Circular, it ought to be read in favour of the
beneficiary/assessee.
56. On 8th August, 2025 a short note of the submissions on behalf of Mr.
Tarun Gulati, ld. Sr. Counsel appearing to assist the Court, was placed on
record. As per the said note, the following submissions are taken into
consideration:
(i) That Explanation 2(a) to Section 54 of the CGST Act would be
inapplicable in the present case as the case pertains to ‘refunds of
unutlised ITC’ and Explanation 2(a) does not use the term unutilised
ITC.
(ii) That Explanation 2(a) to Section 54 of the CGST Act would be
inapplicable also because the limitation period cannot commenceSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 20 of 43
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before the right to claim the refund of unutilised ITC accrues in
favour of the registered person.
(iii) Further, as per the language used in unamended Explanation 2(e),
the said provision applies to all cases where a refund of unutilised
ITC is claimed.
(iv) In addition, it is also contended that the limitation for claiming refund
of unutilised ITC under Explanation 2(e) cannot commence before
the lapse of limitation for claiming ITC. Reliance is place upon the
decision in New India Insurance Co. Ltd. v. Shanti Misra (1975) 2
SCC 840 and T. Kaliamurthi v. Five Gori Thaikkal wakf and Ors.
(2008) 9 SCC 306 to contend that when a law of limitation is in
operation on the commencement of an action, a new law of limitation
cannot extinguish a right of action, by providing a shorter period of
limitation.
(v) Finally, it is his submission that where a statutory remedy is
conferred, the Court ought to adopt a liberal and expansive
interpretation, whereas any provision curtailing such remedy must be
construed strictly. In this regard, reliance is placed upon the decision
of the High Court of Bombay in Electrofronts and Anr. v. Union of
India, 2003 SCC Online Bom 596.
Analysis and Findings
57. The Petitioners herein have filed refund applications claiming refund
of unutilised ITC on account of export of goods without payment of tax as
also refund of ITC accumulated due to inverted duty structure. However, the
said refund applications have been rejected by the Adjudicating Authority as
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also the Appellate Authority on the ground that the same are time-barred. In
view thereof, the issues that arise for consideration in the present petitions are:
(i) what would be the relevant date from which the two year period
under Section 54 of the CGST Act is to be calculated;
(ii) whether the amendment to Explanation 2(e) to Section 54 of the
CGST Act, brought into effect from 1st February, 2019, would
apply to refund claims pertaining to a period prior to the said
amendment?
Scheme of Section 54 of the CGST Act
58. The period within which the refund of any tax and interest under the
CGST Act is to be sought, has been prescribed under Section 54. The said
provision comprises various sub-sections and Explanations, which requires
interpretation in the present petitions.
59. As per Section 54(1) of the CGST Act, an application for refund is
required to be made before the expiry of two years, which is to be computed
from the relevant date. Section 54(1) of the CGST Act stipulates three
aspects:
(i) That refunds of any tax and interest can be claimed by tax payers;
(ii) The same ought to be claimed within two years;
(iii) That the two year period is to be calculated from the relevant date;
60. The amounts for which the refund can be claimed includes tax and
interest. Under Explanation (1) to Section 54 of the CGST Act, the term
‘refund’ has been defined as under:
“[…]
Explanation.–For the purposes of this section,–
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(1) “refund” includes refund of tax paid on zero-rated
supplies of goods or services or both or on inputs or
input services used in making such zero-rated supplies,
or refund of tax on the supply of goods regarded as
deemed exports, or refund of unutilised input tax credit
as provided under subsection (3).”
61. The aforesaid definition of refund is an inclusive one. In terms thereof,
the categories of amounts for which, inter alia refund can be claimed are as
under:
(i) Refund of tax paid on zero-rated supplies of goods and services or
both;
(ii) Refund of tax paid on inputs or input services used in making such
zero-rated supplies;
(iii) Refund of tax on the supply of goods regarded as deemed exports;
(iv) Refund of unutilised ITC in terms of Section 54(3);
62. Thus, in respect of all the above four categories of amounts, refund
applications can be filed.
63. Coming to the second aspect, i.e., the limitation period within which
refund can be claimed, the general rule is that refund applications have to be
made prior to the expiry of two years from the relevant date. The expression
relevant date is defined in Explanation (2)(a) to (h) to Section 54 of the CGST
Act. The provision stipulates distinct relevant dates depending upon the
nature of transaction, including supplies, exports, etc. For the sake of ready
reference, Explanation (2) to Section 54 of the CGST Act is extracted below:
“[…]
(2) “relevant date” means–
(a) in the case of goods exported out of India where a
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refund of tax paid is available in respect of goods
themselves or, as the case may be, the inputs or input
services used in such goods,–
(i) if the goods are exported by sea or air, the date
on which the ship or the aircraft in which such
goods are loaded, leaves India; or
(ii) if the goods are exported by land, the date on
which such goods pass the frontier; or
(iii) if the goods are exported by post, the date of
despatch of goods by the Post Office concerned to
a place outside India;
(b) in the case of supply of goods regarded as deemed
exports where a refund of tax paid is available in respect
of the goods, the date on which the return relating to
such deemed exports is furnished;
[(ba) in case of zero-rated supply of goods or services
or both to a Special Economic Zone developer or a
Special Economic Zone unit where a refund of tax paid
is available in respect of such supplies themselves, or as
the case may be, the inputs or input services used in such
supplies, the due date for furnishing of return under
section 39 in respect of such supplies;]
(c) in the case of services exported out of India where a
refund of tax paid is available in respect of services
themselves or, as the case may be, the inputs or input
services used in such services, the date of–
(i) receipt of payment in convertible foreign
exchange [or in Indian rupees wherever
permitted by the Reserve Bank of India],
where the supply of services had been
completed prior to the receipt of such
payment; or
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(ii) issue of invoice, where payment for the
services had been received in advance prior
to the date of issue of the invoice;
(d) in case where the tax becomes refundable as a
consequence of judgment, decree, order or direction of
the Appellate Authority, Appellate Tribunal or any
court, the date of communication of such judgment,
decree, order or direction;
[(e) in the case of refund of unutilised input tax credit
under clause (ii) of the first proviso to sub-section (3),
the due date for furnishing of return under section 39
for the period in which such claim for refund arises;]
(f) in the case where tax is paid provisionally under this
Act or the rules made thereunder, the date of adjustment
of tax after the final assessment thereof;
(g) in the case of a person, other than the supplier, the
date of receipt of goods or services or both by such
person; and
(h) in any other case, the date of payment of tax.”
64. The determination of the relevant date depends upon several factors. It
depends upon the nature of the refund amount as also the nature of the supply
of goods or services. Explanation (2) to Section 54 of the CGST Act can be
simplified as under:
(i) Under Explanation 2(a), which is applicable to goods exported out
of India, refund can be of either tax which is paid in respect of goods
themselves or the tax paid on the inputs or input services used in
such goods. In such a case, depending upon the mode of transport
used, the broad principle is that the period of two years underSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 25 of 43
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Section 54(1) of the Act, is to be reckoned from the date on which
the ship or aircraft was loaded, in case of export by sea or air. In
case of land transport, the date on which the goods pass the border.
In case of postal export, the date of dispatch by the post office.
(ii) In the case of supply of deemed exports under Explanation 2(b), the
relevant date would be the date of furnishing of return.
(iii) In cases of zero-rated supply of goods/services to SEZ developer or
SEZ units, where a refund of tax paid is claimed, the relevant date
would be the due date for furnishing the return under Section 39 in
respect of such supplies.
(iv) Explanation 2(c) pertains to services exported out of India or inputs
or input services used in such services. In cases where supply of
services had been completed prior to the receipt of payment, the
relevant date is calculated based on the receipt of payment in
convertible foreign exchange or in Indian rupees, wherever so
permitted by the Reserve Bank of India. In cases where the payment
of services had been received in advance, the date of the issuance of
invoice would be the relevant date.
(v) As per Explanation 2(d), if the tax amount becomes refundable in
view of the orders passed by the Courts or Tribunals, the date of
communication of such orders or judgments would be the relevant
date.
(vi) Initially, Explanation 2(e) provided that, in cases of refund of
unutilised ITC under Section 54(3) of the CGST Act, the relevant
date would be the end of the financial year in which such claim for
refund arises. However, this provision was substituted by theSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 26 of 43
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Central Goods and Services Tax (Amendment) Act, 2018 dated 30 th
August, 2018 w.e.f. 1st February, 2019, whereby, it was restricted
to clause (ii) of first provsio to Section 54(3) of the Act, instead of
Section 54(3) as a whole. The scope and effect of this substitution
requires consideration and shall be examined subsequently. The
relevant unamended Explanation 2(e) to Section 54 of the CGST
Act is extracted below for ready reference:
“(e) in the case of refund of unutilised input-tax
credit under sub-section (3), the end of the
financial year in which such claim for refund
arises;”
(vii) Explanation 2(f) is concerned with cases where any tax is paid
provisionally. In such circumstances, the relevant date for seeking
a refund would be the date of adjustment of tax after the final
assessment.
(viii) Under Explanation 2(g), in respect of persons other than suppliers,
the relevant date would be the date of receipt of goods or services
by such persons.
(ix) Finally, Explanation 2(h), being a residuary provision, the relevant
date would be the date of payment of tax.
65. In view of the above, it is evident that the determination of relevant
date under Section 54 of the CGST Act is not uniform – the same depends
upon the nature of the transaction and the category of the refund claimed. The
statutory scheme highlighted hereinabove provides a comprehensive
framework for indentifying the relevant date in diverse transactions,
including exports, deemed exports, services, unutilised ITC etc.
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Consequently, in each case, the applicable clause of Explanation 2 must be
carefully applied, in light of the nature of the transaction in question.
66. Having considered the scheme of Section 54 of the CGST Act, it is
also relevant to consider the provision governing zero-rated supplies, as the
Petitioner in W.P.(C) 12512/2021 is seeking refund of ITC on export of goods
without the payment of tax.
67. Section 16 of the IGST Act defines ‘zero-rated supply’. The same is
extracted below for ready reference:
“16. Zero rated supply.–(1) “zero rated supply”
means any of the following supplies of goods or services
or both, namely:–
(a) export of goods or services or both; or
(b) supply of goods or services or both [for
authorised operations] to a Special
Economic Zone developer or a Special
Economic Zone unit.”
68. In terms of the above provision, zero-rated supplies would include
export of goods or services or both as also supply to any SEZ developer or
SEZ unit.
Interpretation of ‘Relevant date’ and applicability of the amendment to
Explanation 2(e) of Section 54 of the CGST Act.
69. The interpretation and application of Section 54 of the CGST Act,
particularly in relation to determination of relevant date and the period of
limitation for filing of refund claims, has been considered by various High
Courts. At this stage, it is apposite to discuss the judicial precedents that have
emerged on the interpretation of relevant date and the applicability of the
amendment to Explanation 2(e) to Section 54 of the CGST Act.
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70. The Nagpur Bench of the High Court of Bombay in M/s Babasaheb
Keda Shetkari Sahakari Soot Girni limited (Supra) was considering the
applicability of the amendment to Explanation 2(e) to Section 54 of the CGST
Act. It was observed that the amendment came into effect on 1st February,
2019 and, therefore, the refund applications filed for the period prior to the
said date would not be governed by the amended provision. The relevant
paragraph of the said judgement is set out below:
“6. Insofar as the plea regarding applicability of the
amendment to Section 54(1) of the GST Act is
concerned, it would be apparent that the amendment
would be prospective in nature, unless so specified,
which is not the case and therefore, the amended
Section 54(1) would be applicable to the application
for refund filed post 01/02/2019 to claim for refund in
respect of returns filed consequent to that date. It
would therefore, be apparent that the application for
refund of the input tax to be filed by the petitioner
would be covered by the earlier definition of ‘relevant
date’ which defined the same as end of financial year
and not the amended definition of ‘relevant date’
which defines it as due date for furnishing return.”
71. As can be seen from the above decision, the High Court of Bombay has
observed that the application of amendment to Explanation 2(e) to Section 54
of the CGST Act is prospective in nature.
72. A ld. Division Bench of this Court in ‘Sethi Sons (India) v. Assistant
Commissioner and Others‘ 2023 SCC OnLine Del 8351, was also dealing
with a case involving denial of refund of unutilized ITC accumulated on
account of GST paid on inputs in respect of zero-rated supplies. In the said
case, the Court observed that the two year limitation prescribed under Section
54(1) would apply in the following terms:
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“19. In view of the above, there is no cavil that the
petitioner was required to make an application for
refund under Sub-section (1) of Section 54 of the CGST
Act within two years of the goods leaving India or
crossing its territorial frontiers.”
73. However, it was further observed that, since the Petitioner’s refund
application could not be uploaded in time due to technical glitches, the same
ought to be considered on merits and not be denied on the ground of
limitation. The relevant portion of the said decision reads as under:
“[…]
29. It is also acknowledged that there were delays in
processing refund due to various taxpayers. In the
present case, the petitioner has affirmed that he did not
file refund applications manually as he was guided by
the jurisdictional GST Officers that the refund claim
was required to be filed after the actual GST return in
Form GSTR-9 was filed and after obtaining bank
realization certificates. The petitioner claims that he
filed his return on 30.01.2020 and filed an application
for refund immediately thereafter. The respondent has
denied that the concerned officer had misguided the
petitioner in any manner and there is no record of any
advice given by the concerned officer. However, we are
inclined to accept the petitioner’s version that he had
made oral enquiries for filing an application for refund.
Ordinarily, this would be no ground to overlook the
delay but this Court cannot be oblivious of the fact that
during the initial period of the rollout of the GST
regime, both taxpayers and the officials of the GST
departments had faced innumerable difficulties which
were being addressed. Some of the difficulties still
persist and are being addressed. In this environment,
it is not difficult to accept that a taxpayer would have
sought advice from the jurisdictional officers.
Undisputedly, the petitioner had acted in a bona fideSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 30 of 43
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manner.
30. There is no dispute that the petitioner had
attempted to file an application for refund on the GST
portal twice but its application could not be uploaded
on account of technical glitches. It is not disputed that
the petitioner had also made a complaint and a ticket
for the same was also raised.
31. In the peculiar facts of the case, we are unable to
accept that the petitioner’s claim for refund is required
to be denied on the ground of delay.
32. In view of the above, we direct the proper officer to
examine the petitioner’s claim for refund and process
the same, if it is found that the petitioner is entitled to
the same.”
74. The Madras High Court in M/s Tulip Nilgiris Export Pvt. Ltd. (Supra)
was also dealing with a case of refund in respect of unutilised ITC on account
of exports. It was found that the Petitioner had inadvertently claimed lower
refund than what it was entitled to. Accordingly, the Petitioner had claimed
additional refund in a subsequent application. After considering the
explanations and the definition of relevant date under Section 54 of the CGST
Act, the Court held that the two year period is to be computed from the
relevant date, which is the date of exports. The objection of delay was set
aside, and the matter was remanded for fresh consideration. The relevant
portion of the said judgement is set out below:
“….From the above provision, the conclusion that
follows is that a refund claim may be made before the
expiry of two years from the relevant date. Such
relevant date is required to be computed from the date
of export of the goods concerned by any mode. Since
the refund claim pertains to exports made betweenSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 31 of 43
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July 2017 and November 2017 and the refund
application was filed on 09.01.2019, it is clear that
such refund application was made within two years
from the relevant date. Circular No.37, which was
relied upon by learned counsel for the petitioner,
clarifies that refund claims may be made not only on a
calendar month basis but by clubbing claims pertaining
to more than one calendar month or more than one
quarter….
XXX
7. The above discussion leads to the conclusion that the
refund claim of the petitioner was made within the
period of limitation prescribed by statute.”
75. The High Court of Gujarat in Nitrex Chemicals India Ltd (Supra) was
considering the relevant date for filing of the refund application under Section
54 of the CGST Act. In the said case, the Petitioner was claiming refund of
IGST paid on zero-rated supplies in the form of exports. Thereby, the Court
had held that the relevant date would be the ‘date of exports’, as per
Explanation 2(a) to Section 54 of the CGST Act. In this regard, the operative
portion of the said decision reads as under:
“[…]
17. On conjoint reading of Explanation 2 with Section
54(1), it is clear that any person claiming refund of any
tax and interest, if any, paid on such tax or any other
amount paid by him, has to make application before the
expiry of two years from the relevant date and as per
Explanation 2, relevant date means in the case of goods
exported out of India is the date on which such goods
are loaded either in Ship or aircraft, leaves India is the
relevant date. Therefore, in the facts of the case
relevant date for the goods exported by the petitioner
would be from the date of shipping mentioned in the
shipping bills. Therefore, period of two years isSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 32 of 43
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required to be calculated from the date of shipping.”
76. It is pertinent to note that in Nitrex Chemicals India Ltd (Supra) the
refund application which was filed by the Petitioner was for claiming refund
of IGST on account of exports only. Thereby, the relevant date was construed
as the date of exports.
77. In Gillette Diversified Operations (Supra), the High Court of Madras
was dealing with a batch of matters wherein the refund applications of the
Petitioners were held by the Adjudicating Authority and the Appellate
Authority, to be time-barred. The issue involved in the said judgement was
framed as under:
“12. The point for consideration in these Writ Petitions
are whether the refund claims were filed in time or
beyond time within the meaning of Section 54 of the
Central Goods and Service Tax Act,2017?”
78. The Court considered similar provisions under Section 16 of the IGST
Act. It was also noted that the Petitioners were claiming refunds on zero-rated
supplies i.e., exports, and hence the relevant date would be two years from
the end of the tax period. The operative portion of the said decision is set out
below:
“46. Ordinarily refund is to be made within a period of
2 years from the “relevant date” as defined in
Explanation 2 to Section 54 of CGST Act, 2017. As per
Sub-Section 3 to Section 54, a registered person may
claim of refund of unutilized Input Tax Credit at the end
of the “tax period”. Thus, Input Tax Credit remains
unutilized can be subject matter of refund which is
remaining unutilized at the end of the “tax period”.
XXX
54. The amendment to Explanation 2(e) to Section 54 of
CGST Act, 2017 with effect from 01.02.2019 vide
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Notification No.02/2019-CT dated 29.01.2019
pursuant to CGST Amendment Act, 2018 (31/2018)
dated 30.08.2018 was intended clarify what was explicit
in Clause (ii) to Proviso to Section 54(3) of CGST Act,
2017.
55. By the above amendment, the Parliament has
clarified that the period of limitation for refund of
utilized Input Tax Credit in the case of refund of
unutilized Input Tax Credit under clause (ii) of the first
Proviso to sub-section (3), the due date for furnishing of
return under section 39 for the period in which such
claim for refund arises.”
79. Further, the Madras High Court found that, in the facts of the said case,
the Petitioners were not claiming refund on the basis of ITC on account of
inverted tax rate under clause (ii) of first proviso to Section 54(3) of the CGST
Act. It was held that the refund claims had been filed within a period of two
years from the date of exports. Thus, the Court held that the refund claims
ought to be adjudicated on merits. In this regard, the observation of the Court
is as under:
“70. In view of the above discussion, the stand of the
Department is not correct. That apart, legitimate export
incentives are to be granted as long as there is a
substantial compliance to the provision.”
80. Recently, the Jammu and Kashmir High Court in ‘Bharat Oil Traders
v. Assistant Commissioner and Anr.‘ (2025) SCC Online J&K 1416, dealt
with a case involving inverted tax structure i.e., where the rate of tax
applicable on the inputs was higher than the rate applicable towards the
outward supplies. The Petitioner was seeking refund of accumulated ITC. The
Court considered that for the purpose of unutilised ITC under inverted duty
structure, relevant date would have to be construed as per Explanation 2(e) to
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Section 54 of the CGST Act. Further, the Court dealt with the amendment to
Explanation 2(e) and gave a detailed analysis as under:
“17. The issue that therefore arises for consideration
is whether the amendment effective from February 1,
2019, which curtailed the period prescribed for filing
refund applications, can be applied so as to divest or
curtail the vested right of the petitioner in relation to
the period preceding the amendment.
18. The right to claim refund with respect to period
preceding the amendment cannot be curtailed by the
amendment. The amended section cannot operate
retrospectively so as to take away a vested right. This
amendment must be treated as prospective unless it is
given retrospective effect. The vested right of the
petitioner cannot be unilaterally revoked or curtailed by
a subsequent amendment to the statute unless the
amendment expressly provides for retrospective
application. Thus, even though the amendment came
into force on February 1, 2019, it cannot curtail the
rights vested in the petitioner.
XXX
20. Thus, even though the amendment came into force
on February 1, 2019, it cannot curtail the right which
had already vested prior thereto. Therefore, the
unamended definition of “relevant date” would
continue to apply.
21. This apart, amendment to section 54 which
changed the definition of “relevant date” with effect
from February 1, 2019 cannot be applied
retrospectively to the period prior to the amendment to
curtail the petitioner’s right to refund within the
originally stipulated time. It is well-settled that every
statute is presumed to operate prospectively unless the
same is expressly made retrospective, substantive
amendments which alter or curtail the scope of tax
payer vested rights are presumed to be prospectiveSignature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 35 of 43
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unless the legislation unequivocally provides otherwise.
23. The petitioner’s claim for January 2019 to March
2019 was rejected only on the ground that no eligible
inputs were received during the said period but no
reasoned finding in this regard has been given. The
refund claim for July 2017 to December 2018 are not
barred by limitation as it falls within the extended
limitation period afforded by the aforesaid notification.
The refund claim from January to March 2019 is also
not barred by limitation under section 54. The
retrospective application of the amendment would
deprive the petitioner to claim refund, as this right had
been vested with the petitioner. The claim of the
petitioner, therefore, cannot be thrown out solely on
technical grounds of delay.”
81. In terms of the aforesaid judgement, the Court held that the amendment
to Explanation 2(e) to Section 54 of the CGST Act cannot operate
retrospectively so as to divest the vested rights of the claimant. In view
thereof, the Court concluded that the refund application of the Petitioner in
the said case, was not barred by limitation, as the relevant date ought to be
construed differently in cases where refund of ITC is claimed under an
inverted tax structure.
Applicability of the amendment to Explanation 2(e) to Section 54 of the
CGST Act
82. At the stage, the issue to be considered in both these petitions is the
applicability of the amended Explanation 2(e) to Section 54 of the CGST Act
while determining the refund claims of the Petitioners.
83. In W.P.(C) 12512/2021, the argument of the Petitioner is that the
limitation period for filing of refund application is governed by the
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unamended Explanation 2(e) read with first proviso to Section 54(3) of the
CGST Act.
84. On the other hand, the argument of the Revenue is that in this case, the
limitation period would be governed by the Explanation 2(a) to Section 54 of
the CGST Act, as the case involves exports.
85. In W.P.(C) 17538/2022, the contention of the Petitioner is that the
amendment to Explanation 2(e) would not be applicable, as the refund claim
pertains to the period 2017-2018 and 2018-2019 i.e., prior to the enactment
of the amended provision.
86. Per contra, the argument of the Department is that, since the refund
applications were filed by the Petitioner in 2021, the relevant date has to be
construed as per the amended Explanation 2(e).
87. It deserves to be noted that the amendment to Explanation 2(e) of the
CGST Act was brought about by the Central Goods and Services Tax
(Amendment) Act, 2018 dated 30th August, 2018 w.e.f. 1st February, 2019.
88. In W.P.(C) 12512/2021, exports were effected vide E.G.M. dated 6th
October, 2017 and E.G.M. dated 20th March, 2018, which is prior to the
amendment to Explanation 2(e) to Section 54 of the CGST Act. The refund
application, however, was filed on 29th March, 2020, i.e., after the amendment
came into force.
89. In the said case, the applicable provision would be the provision that
existed when the exports were effected. Since the exports took place prior to
1st February, 2019, the applicable provision would be the provision prior to
the amendment.
90. The High Court of Bombay in M/s Babasaheb Keda Shetkari Sahakari
Soot Girni limited (Supra) has held that the refund applications pertaining to
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the period prior to the enactment of the amended provision would not be
governed by the amended provision. The Court has categorically held that the
amendment is prospective in nature.
91. Similarly, in Bharat Oil Traders (Supra), the Jammu and Kashmir
High Court undertook a detailed analysis of the applicability of the
amendment to Explanation 2(e). It was noted that right to claim refund is a
vested right of the Petitioner. It was further observed that claiming refund for
a period preceding the amendment cannot be curtailed by the amendment. It
was held that the amended provision cannot operate retrospectively so as to
take away a vested right of the Petitioner. Thus, it was observed that the
amendment to Explanation 2(e) to Section 54 of the CGST Act cannot curtail
the right which had already vested prior thereto.
92. This Court concurs with the view taken by the Bombay High Court and
the High Court of Jammu & Kashmir. The settled legal position is that the
provision that would be applicable would be the provision which existed on
the date of the transaction. On the day when the transaction took place, the
statute provided for a specific period of limitation. The said period cannot be
curtailed on the basis of a subsequent amendment which came into existence
and could not have been in the knowledge of the tax payer. Further, insofar as
the refund claims of the Petitioner in W.P.(C) 17538/2022 are concerned, the
ratio in M/s Babasaheb Keda Shetkari Sahakari Soot Girni limited (Supra)
and Bharat Oil Traders (Supra) squarely apply. The applicable provision
would be the unamended Explanation 2(e) to Section 54 of the CGST Act.
Signature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 38 of 43
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Applicability of Explanation 2(a) and Explanation 2(e) of Section 54 of the
CGST Act
93. The further issue that requires consideration in W.P.(C) 12512/2021 is
as to whether Explanation 2(a) or unamended Explanation 2(e) to Section 54
of the CGST Act would be applicable to the said case.
94. A perusal of Explanation 2(a) to Section 54 of the CGST Act would
reveal that the same deals with the relevant date while construing the refund
of ‘tax paid’ on either:
● Goods themselves;
● Inputs in such goods;
● Inputs services used in such goods.
95. In all of these cases, it is the ‘tax paid’ of which refund can be sought.
On the other hand, under the first proviso to Section 54(3) of the CGST Act,
the refund is in respect of unutilised ITC qua export of goods or services and
on account of inverted duty structure.
96. Explanation 2(a) and unamended Explanation 2(e) to Section 54 of the
CGST Act operate on two separate footings, i.e., ‘tax paid’ on one hand and
‘unutilised ITC’ on the other hand. If the case pertains to ‘tax paid’ refunds
in respect of exports only, Explanation 2(a) would be applicable. However, if
the case relates to a refund of unutilised ITC on account of exports,
unamended Explanation 2(e) read with first proviso to Section 54(3) of the
CGST Act would be applicable.
97. The statutory scheme of Section 54 of the CGST Act, as discussed
hereinabove, indicates that there are varying situations in which refunds can
be claimed, when goods/services are exported. Broadly, these are:
• Situation I-where tax is paid at the time of export of goods and
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services;
• Situation II-where a claim is made for refund of unutilised ITC, either
in the case of zero-rated supplies or on the account of inverted duty
structure.
Clause (e) to Explanation 2 is a special provision for refund of unutilised ITC,
as against Clause (a) to Explanation 2, which is the general provision for
exports.
98. The expression ‘relevant date’ is required to be construed with
reference to the category under which the refund claim falls. In cases
involving simple export of goods, and tax has been paid at the time of export,
the relevant date would be construed in terms of Explanation 2(a). In case of
other kinds of exports such as deemed exports, Explanation 2(b) would apply.
In respect of zero-rated supplies made to a SEZ developer or unit, the
applicable provision would be Explanation 2(ba). Insofar as export of services
is concerned, the relevant date would be governed by Explanation 2(c). In the
case of unutilised ITC, Explanation 2(e) would be applicable. Therefore, the
scheme of the Act accords different treatment to different types of exports.
All exports are not treated identically.
99. Refunds in the case of unutilised ITC is a different species of refund,
inasmuch as, for availing the said refund, the same must be reflected in the
Electronic Credit Ledger (hereinafter, ‘ECL’). For any ITC to be so reflected
in the ECL, various statutory requirements are to be fulfilled, including
compliances under Section 16 and 17 of the CGST Act, for the valid availment
of ITC. Thereafter, such ITC has to be reflected in the ECL and remain
unutilised at the end of the financial year. Thus, the filing of returns assumes
crucial importance, whenever refund applications are filed for unutilized ITC.
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100. In contrast, in cases of simple exports where tax is paid at the time of
export and refund thereof is claimed, the above considerations do not arise. If
Explanation 2(a) were to be applied uniformly to all categories of exports,
including those involving unutilised ITC, it may result in an anomalous
situation where exporters would be unable to claim refund of unutilized ITC
completely, as the two year period from the relevant date may come to an end
before the due date of claiming such ITC itself. Such an interpretation would
defeat the scheme of the Act and render the entitlement to refund of unutilised
ITC illusory in certain cases.
101. This can be demonstrated by way of an illustration. The due date for
claiming ITC pertaining to financial year 2017-2018 was extended to 30th
November, 2021 under Section 16(5) of the CGST Act. When such extensions
are granted, the filing of the relevant GST forms which are to be deposited by
the suppliers, along with completion of corresponding documentation, may
be deferred, and consequently, the ECL may not reflect the unutilised ITC
within the original time frame. Relevant date has to be, therefore, construed
as per the last date for filing of return in such cases.
102. Therefore, Explanation 2(e) contemplates a different species of exports
and refunds related thereto. In cases involving refund of unutilised ITC, thus,
the relevant date must be construed in terms of Explanation 2(e) and not
Explanation 2(a).
103. Further, in M/s Tulip Nilgiris Export Pvt. Ltd. (Supra) and Sethi Sons
(India), Explanation 2(e) was not pressed by the parties. In Nitrex Chemicals
India Ltd (Supra), the refund claim was for IGST paid on zero-rated supplies
in the form of exports, which is why the relevant date was construed as per
the date of exports under Explanation 2(a). The facts and circumstances
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therein are distinguishable from the present cases.
104. Accordingly, in W.P.(C) 12512/2021, considering the discussion
hereinabove, the applicable provision for determining the relevant date would
be Explanation 2(e) and not Explanation 2(a) to Section 54 of the CGST Act.
Conclusion
105. In view thereof, in W.P.(C) 12512/2021, the refund application was
filed on 29th March, 2020. The relevant date would be reckoned as per the
unamended Explanation 2(e) i.e., end of the financial year, as the case relates
to unutilised ITC.
106. In W.P.(C) 17538/2022, the refund applications were filed on 28th
March, 2021 and 30th March, 2021. In this case, the refund was claimed for
ITC accumulated on the account of inverted duty structure. This case also
pertains to unutilised ITC, thereby Explanation 2(e) would apply. The same
is not disputed by the parties. However, the applicable provision would be the
provision that existed prior to the amendment.
107. In both these petitions, the impugned orders holding the refund
applications to be time-barred are, therefore, not tenable and are, accordingly,
set aside.
108. The Department is directed to process the refund applications of the
Petitioners on merits and pass appropriate orders, in accordance with law,
within a period of three months from this order.
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109. The petitions are disposed of in the said terms. Pending applications, if
any, are also disposed of.
PRATHIBA M. SINGH
JUDGE
SHAIL JAIN
JUDGE
APRIL, 18 2026
dj/dk/sm
Signature Not Verified W.P.(C) 12512/2021 & W.P.(C) 17538/2022 Page 43 of 43
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By:DHIRENDER KUMAR
Signing Date:18.04.2026
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