Quick Summary
The GST Council has announced a significant waiver on late fees for GSTR-9C filings. Taxpayers who missed the deadline for financial years 2017-18 through 2022-23 can now submit their GSTR-9C by March 31, 2025, without incurring additional penalties. This relief applies to registered taxable persons required to file an audit, provided their turnover exceeds Rs. 5 crore. Note that no refunds will be issued for late fees already paid.

GSTR-9C is a reconciliation between GST turnover with the Audited Financial Statement.

Latest Update

As per Notification No. 08/2025 taxpayers who missed filing GSTR-9C along with GSTR-9 for FY 2017-18 to FY 2022-23 can now submit it by March 31, 2025, without additional late fees.

The 55th GST Council has recommended that a taxpayers will get a waiver on the excess late fee if FORM GSTR-9C is filed by March 31, 2025 for returns from 2017-18 to 2022-23.

Applicability

It must be filed by registered taxable person who is liable to file audit as per provision of GST Act.

Note: Certification of GST Auditor is required who is either a CA/CMA through digital signature and must be attested by the taxpayer using a digital signature.

Not Applicable To?

Those who mentioned under GSTR-9 but also a registered person whose aggregate turnover in an financial year is less than 2 crores.

Turnover Limit

Taxpayers are eligible to file GSTR-9C is the turnover exceeds Rs. 5 Crore in a financial year.

Due Date

The due date to file GSTR-9C for the FY 23-24 is on or before 31st December 2024.

How to make the payment?

If the Turnover, Tax and ITC remains unreconciled then payable must be through DRC-03.

GST Council's Clarification

The GST Council has provided clarification regarding the late fee applicable for the delayed filing of FORM GSTR-9C (Reconciliation Statement) along with FORM GSTR-9 (Annual Return) for the period from 2017-18 to 2022-23. Here are the key points:

Applicability of Late Fee

  • Late fee is levied, if delayed in filing of both FORM GSTR-9 and FORM GSTR-9C, as per Section 47(2) of the CGST Act, 2017.
  • FORM GSTR-9C is mandatory for certain taxpayers, and if it is delayed beyond the due date then, late fee is applicable.

Waiver of Late Fee for FORM GSTR-9C (2017-18 to 2022-23)

Late Fee Waiver

  • As per the notification, the GST Council waived the late fee u/s 47 of the CGST Act for filing GSTR-9C for the financial years 2017-18 to 2022-23.

Applicable To

  • The waiver applies to taxpayers who had to file GSTR-9C along with GSTR-9 but failed to do so on time.

Condition For Waiver

  • The waiver is conditional upon the filing of FORM GSTR-9C and it must be filed on or before March 31, 2025.

No Refund Clause

  • No refund will be granted for any late fees already paid before this waiver.

Conclusion

The government’s waiver of excess late fees for GSTR-9C filing provides much-needed relief to businesses that missed the deadline.

Taxpayers who were required to file both GSTR-9 and GSTR-9C but delayed in submitting GSTR-9C should take advantage of this opportunity and submit by March 31, 2025, to avoid additional penalties.


GSTR-9C is a reconciliation statement that compares a business's GST turnover with its audited financial statements.

The waiver applies to taxpayers required to file GSTR-9C for FY 2017-18 to 2022-23 who missed the original deadline. Eligibility requires a turnover exceeding Rs. 5 crore in a financial year.

To benefit from the late fee waiver, GSTR-9C must be filed by March 31, 2025.

No, the waiver is not applicable to registered persons whose aggregate turnover in a financial year is less than Rs. 2 crore, even if they mentioned it in GSTR-9.

No, the waiver does not include a refund clause for any late fees that have already been paid before this notification.




About the Author

Finance Professional

I write about Income Tax, GST, TDS, RBI updates, government schemes, and personal finance in India. My focus is on simplifying complex tax and compliance topics into easy-to-understand guides that help readers stay updated with the latest financial rules, investment options, and regulatory changes.


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