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Handling Inadvertently Rejected Invoices on IMS: A Practical Guide

Handling Inadvertently Rejected Invoices on IMS: A Practical Guide

With the introduction of the Invoice Matching System (IMS), the Government has enhanced transparency and accuracy in GST credit claims. However, mistakes such as inadvertently rejecting valid invoices, debit notes, or credit notes in IMS are not uncommon, especially when GSTR-3B has already been filed. Taxpayers often seek clarification on how to correct these errors, avail rightful ITC, or reverse wrongly claimed credits.

This article offers a step-by-step guide on how recipients and suppliers can handle such situations effectively, ensuring compliance while minimizing tax implications.

Scenario 1: ITC Not Availed Due to Rejected Invoices/DNs on IMS

Issue:

Recipient has wrongly rejected invoices, debit notes, or ECO-documents on IMS. Corresponding GSTR-3B has already been filed.

Solution:

The recipient should request the supplier to re-report the same record (unchanged) in:

  • GSTR-1A of the same tax period, or
  • Amendment Table of subsequent GSTR-1/IFF, before the time limit under Section 16(4).

Once the supplier does this:

1.    Recipient accepts the amended record on IMS.

2.    Recomputes GSTR-2B on IMS.

3.    Avails ITC on the amended (now accepted) record in GSTR-2B.

Result:

Recipient becomes eligible to avail the full ITC on the invoice that was earlier rejected. ITC reflects in GSTR-2B of the tax period where the amendment was accepted.

Scenario 2: Supplier Re-Furnishes a Record Already Rejected by Recipient

Issue:

Supplier had originally reported the invoice/CN/DN correctly, but the recipient rejected it wrongly on IMS.

Solution:

Supplier may now re-furnish the same record (unchanged):

  • Through GSTR-1A (same period), or
  • Amendment Table of GSTR-1/IFF of a later period (within permissible time).

Impact on Supplier’s Liability:

There is no increase in supplier’s liability, because:

  • The amendment table only considers delta value (difference).
  • As the same values are being re-reported (no change), net additional liability = 0.

Scenario 3: Reversal of ITC Due to Rejected Credit Note

Issue:

Recipient had earlier accepted ITC based on a Credit Note, which was wrongly rejected on IMS after GSTR-3B filing.

Solution:

Recipient should:

1.    Ask the supplier to re-report the same CN in:

o   GSTR-1A of same period, or

o   Amendment Table of subsequent GSTR-1/IFF.

2.    Accept the CN on IMS.

3.    Recompute GSTR-2B on IMS.

4.    Reverse the ITC availed earlier based on the accepted amended CN.

Result:

The recipient’s ITC will be reduced by the value of the original CN upon recomputing GSTR-2B. This aligns the ITC with correct liability.

Scenario 4: Supplier Furnishes Rejected CN in Future Period

Issue:

Recipient rejects a Credit Note (CN). Supplier re-reports the same CN (unchanged) in a later return (GSTR-1A or Amendment Table).

Impact on Supplier:

1.    At first, due to rejection of CN, supplier’s liability increases (credit not passed).

2.    Once CN is furnished again via amendment or GSTR-1A, supplier’s liability reduces accordingly.

3.    Since the CN value remains unchanged, the net impact occurs only once.

Timelines and Legal Backing

Action

Deadline

Amendment to GSTR-1/IFF

Till 30th November following the end of financial year (or earlier if GSTR-9 is filed)

ITC Claim by Recipient

As per Section 16(4) – earlier of 30th November of following FY or GSTR-9 filing

 

Practical Example

M/s ABC Ltd. received an invoice from M/s XYZ Traders dated April 10, 2024, for ₹1,00,000 + ₹18,000 GST.
ABC Ltd. accidentally rejected this invoice on IMS while reviewing and filed its April GSTR-3B without claiming this ITC.

How to Fix It:

1.    ABC Ltd. asks XYZ to re-upload the same invoice in:

o   GSTR-1A for April, or

o   Amendment Table of GSTR-1 for May or June.

2.    ABC Ltd. then:

o   Accepts the record in IMS.

o   Recomputes GSTR-2B.

o   Claims ITC in the period when recomputed GSTR-2B reflects the invoice.

Since XYZ re-uploaded the invoice unchanged, their liability doesn’t change.

Common Mistakes to Avoid

  • Don’t modify the invoice values during re-filing by the supplier. This may create unmatched data.
  • Ensure supplier doesn’t reissue new invoice numbers—use same invoice reference.
  • Communicate clearly between supplier and recipient for smooth coordination.
  • Don’t delay corrections beyond 30th November of following FY.

Summary Checklist

Task

Responsible Party

Tool

Identify wrongly rejected records

Recipient

IMS Dashboard

Request re-reporting of records

Recipient

Communication with Supplier

Re-upload record without changes

Supplier

GSTR-1A / Amendment Table

Accept and recompute GSTR-2B

Recipient

IMS

Avail/Reversal of ITC

Recipient

GSTR-3B

 

Conclusion

IMS is a powerful tool for ensuring ITC transparency, but even the most compliant businesses may face hiccups like wrongly rejected documents. Fortunately, the GSTN framework supports corrections through proper amendment and acceptance workflows.

By promptly coordinating with suppliers and leveraging GSTR-1A or amendment tables, taxpayers can claim rightful ITC or reverse wrong credits with no additional liability impact on the supplier.

Disclaimer: All the Information is based on the notification, circular advisory and order issued by the Govt. authority and judgement delivered by the court or the authority information is strictly for educational purposes and on the basis of our best understanding of laws & not binding on anyone.

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