A technical glitch on the GST portal cannot be a reason to deny a taxpayer their rightful Input Tax Credit (ITC) re-credit; the department must do it manually if needed.

By | October 9, 2025

A technical glitch on the GST portal cannot be a reason to deny a taxpayer their rightful Input Tax Credit (ITC) re-credit; the department must do it manually if needed.


Issue

Can the GST department refuse to re-credit an adjusted refund amount back into a taxpayer’s ITC ledger by citing “technical limitations” on the GST portal, especially when the taxpayer’s legal entitlement to that re-credit is not in dispute?


Facts

  • An assessee had their refund claim of ₹32.20 lakh for accumulated ITC sanctioned by the GST department.
  • However, instead of paying the full amount, the department adjusted ₹23.32 lakh of this sanctioned refund against a prior “erroneous refund” that the assessee had allegedly received.
  • The correct and standard procedure in such a case is for the department to re-credit this adjusted amount (the ₹23.32 lakh) back into the assessee’s electronic credit ledger using Form PMT-03.
  • The assessee duly requested the department to issue the PMT-03. They even paid the interest that the department demanded on the original erroneous refund.
  • Despite all this, the department issued a letter stating that it could not process the re-credit. The reason given was a technical one: the GST portal’s software allegedly did not have an option to issue a PMT-03 for an amount that had been adjusted against an erroneous refund.

Decision

The High Court ruled decisively in favour of the assessee.

  • It noted that the department was not disputing the fact that the assessee was legally entitled to the re-credit of the ₹23.32 lakh. The only reason it was being held up was a self-professed technical inability.
  • The court held that a technical glitch or a limitation on the GST portal cannot be used as an excuse to deny a taxpayer their rightful and admitted credit.
  • The department was directed to re-credit the amount to the assessee’s electronic credit ledger within four weeks.
  • To leave no room for excuses, the court explicitly stated that this re-credit must be done “if required, through manual intervention.”

Key Takeways

  1. Technical Glitches are the Department’s Problem, Not the Taxpayer’s: The government is responsible for ensuring its IT infrastructure is functional and capable of handling all legally required procedures. A taxpayer cannot be made to suffer or be denied their legal rights due to a flaw or a missing feature in the government’s own software.
  2. Manual Intervention is a Valid Solution: When the online system fails or lacks a feature, the department is expected to find an offline or manual solution to ensure the taxpayer’s rights are upheld. They cannot simply throw up their hands and blame the computer.
  3. An Undisputed Right Cannot Be Denied: Once the department admits that a taxpayer is legally entitled to a credit or a refund, they are obligated to grant it. Procedural or technical difficulties are not a valid defense for inaction or for denying that right.
  4. The Purpose of Form PMT-03: This form is the official mechanism to re-credit an amount that was debited from the credit ledger for a refund but was later rejected or, as in this case, adjusted against another demand. The court’s order ensures that the objective of this form is fulfilled, whether online or offline.
HIGH COURT OF DELHI
Mohan Footcare (P.) Ltd
v.
Deputy Commissioner of CGST
PRATHIBA M. SINGH and SHAIL JAIN, JJ.
W.P.(C) No. 6804 of 2024
SEPTEMBER  18, 2025
Abhas Mishra and Ms. Deepika Gawri, Advs. for the Petitioner. Akshay Amritanshu, SSC and Ms. Drishti Saraf, Adv. for the Respondent.
ORDER
Prathiba M. Singh, J.- This hearing has been done through hybrid mode.
2. The present petition has been filed, inter alia, seeking directions to the Respondent Department for issuance of PMT-03 and re-crediting of Input Tax Credit (hereinafter “ITC”) to the tune of Rs. 23,32,278/-.
3. The brief facts of the case are that sometime in March, 2018 the Petitioner had filed a refund claim for ITC which had accumulated till March, 2018, on account of inverted duty structure. It is stated that on 27th September, 2018, a Refund Sanction Order in FORM GST RFD-06 was passed, sanctioning a sum of Rs. 32,20,842/-. However, the same was partly adjusted towards erroneous refunds amounting to Rs. 23,32,278/- for the month of July, 2017 to February, 2018. Accordingly, only a sum of Rs.8,88,564/- was released to the Petitioner.
4. Thereafter, correspondence ensued between the parties and repeatedly, the Respondent Department was asked to issue PMT-03, in respect of the amount deducted from the refund claim.However, on 29th August, 2023, a letter was received by the Petitioner seeking payment of interest in respect of the erroneous refund amounting to Rs.23,32,278/-. The Petitioner even deposited the said interest. Finally, however, the impugned letter dated 8th March, 2024 was issued stating as under:
“Subject: request for issue of GST-PMT 03 for recrediting ITC of Rs. 23,32,278/-reg—
Please refer to your letter dated 07.02.2024 on the above captioned subject.
It is to inform that your request has been examined and noticed that the amount of Rs. 23,32,278/- was adjusted by this office vide Form GST-RFD-06 issued under C. No. CGST-West/Div-MNGP/R-116/MFPL/27/2018-19 dated 25.10.2018, against erroneous refunds of Rs. 23,32,278/- for the month of July’ 2017 to Feb’ 2018.
2. The option for recrediting of any amount by approving PMT-03 is not appearing in case of amount adjusted against any demand/erroneous Refund/ recovery of Government dues. Therefore, your request dated 07.02.2024 cannot be considered.”
5. Notice was issued in this matter initially and attempts were made to resolve the issue, in view of the technical difficulty which was expressed by the Respondent Department. However, now a counter affidavit has also been filed. In the counter affidavit the stand of the Respondent Department is as under:
“5. It is submitted that the Respondent has nowhere denied the re-credit of refund claim amounting to Rs. 23,32,278/-. It is only due to limitation of the GST Portal that the re-crediting of the ITC refund is pending. Since there is no functionality on the GST Portal for re-crediting the amount, that the same is pending.”
6. A perusal of the above extracted paragraph would show that the recrediting of the ITC refund is pending only due to the technical limitation on the GST portal due to which the re-credit has not been possible.
7. Heard the ld. Counsels for the parties. The Department does not dispute that the Petitioner is entitled for re-crediting of the refund claim amounting to Rs.23,32,278/-. Repeated attempts have been made to reflect the same on the portal by issuance of PMT-03 which is made impossible due to a technical issue. In view thereof, the refund of the amount cannot be held back qua the Petitioner.
8. Under these circumstances, in the unusual facts of this case, let the amount of Rs. 23,32,278/- becredited to the Electronic Credit Ledger of the Petitioner within a period of 4 weeks, if required through manual intervention.
9. Petition is disposed of in these terms. All pending applications, if any, are also disposed of.