IDS Refund: GSTR-2B Invoice Not Validated in Statement 01A

Seeking Expert Guidance – GST IDS Refund | Statement 01A
I am currently processing an Inverted Duty Structure (IDS) GST Refund and encountered the following message while filing Statement 01A:
“1 invoice cannot be validated through the system and these invoice details would be sent to the jurisdictional refund processing officer for further verification and refund processing. Do you want to proceed?”
The invoice has been checked against the GSTR-2B, and the relevant details appear to be available there.
I would like to seek guidance from GST practitioners, tax professionals and officers who have practical experience with IDS refund processing.
My queries:
1️⃣ Should we click “PROCEED” and continue with the refund application when the invoice is reflected in GSTR-2B but is not validated by the Statement 01A system?
2️⃣ Does this message mean that the invoice is merely being referred for manual verification, rather than being treated as ineligible?
3️⃣ If the invoice is otherwise eligible ITC and we have the purchase invoice, GSTR-2B and GSTR-3B records, will the jurisdictional refund officer consider it during refund processing?
4️⃣ Has anyone recently faced this type of validation issue in IDS Refund Statement 01A? If yes, how was it handled by the jurisdictional officer?
I would be grateful if experienced professionals could share their practical experience and advice before proceeding with the application.
Should we PROCEED or remove the invoice from Statement 01A?
Your valuable suggestions will be highly appreciated.

Replies (3)
Quick Summary
A GST taxpayer is seeking advice on processing an Inverted Duty Structure (IDS) refund. They encountered a message in Statement 01A indicating an invoice couldn't be validated by the system, though it appears in GSTR-2B. The core questions revolve around whether to proceed with the refund application despite this system message and what the implications are for manual verification by the jurisdictional officer. The consensus is to proceed, as the invoice will be sent for manual review, and providing supporting documents like purchase invoices and GSTR-2B/3B records should facilitate its approval.

  • Action: Click "PROCEED" to submit the Statement 01A application with the flagged invoice intact, provided the ITC is valid and reflected in your GSTR-2B and GSTR-3B.

  • Outcome: The invoice will be routed for manual verification by your jurisdictional officer, whom you can satisfy by presenting proper purchase invoices and reconciliation documents upon request.

YES ,  click PROCEED. This is not a rejection. Here is what the message actually means:

WHAT THE ERROR MEANS:
The GST portal auto-validates invoices in Statement 01A by cross-referencing them with the supplier GSTR-1. When it says INVOICE CANNOT BE VALIDATED THROUGH THE SYSTEM, it means the portal could not find a matching entry in the supplier GSTR-1 at that moment. This happens due to:
- Supplier filed GSTR-1 with a typographical error in invoice number, GSTIN, or amount
- Timing lag between supplier filing and portal sync
- Supplier filed via IFF (quarterly filer) and the invoice did not propagate correctly

WHAT HAPPENS AFTER PROCEEDING:
The system DOES NOT reject your refund claim. The message itself says these invoice details will be SENT TO THE JURISDICTIONAL REFUND PROCESSING OFFICER. This is standard manual verification ,  the officer reviews the invoice against your GSTR-2B and your physical purchase invoice.

DOCUMENTS TO KEEP READY:
1. Physical purchase invoice showing the exact invoice number, date, GSTIN, and amount
2. GSTR-2B screenshot confirming the invoice appears in your 2B
3. GSTR-3B showing the input was declared
4. If possible, a reconciliation statement showing the mismatch reason (e.g., supplier used different invoice reference)

When the officer sends you a DEFICIENCY MEMO or query, respond immediately with these documents and reference the GSTR-2B entry. Officers routinely approve such claims where the invoice is visible in 2B even if 01A auto-validation fails.

Have others dealt with this recently? The system errors have been more frequent post the June 2026 portal update ,  would be useful to know resolution timelines from the group.

Has anyone recently faced a similar issue while filing an IDS refund? Kindly share your experience and advice.

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