GSTR-3B and GSTR-1 late fee
For tax periods from June 2021 onward, the fee is ₹50 for each day of delay: ₹25 under CGST and ₹25 under SGST. A nil return costs ₹20 a day. The fee stops at a cap, and the cap depends on your aggregate turnover in the previous financial year.
| Situation | Per day | Maximum |
|---|---|---|
| Nil return | ₹20 | ₹500 |
| Turnover up to ₹1.5 crore | ₹50 | ₹2,000 |
| ₹1.5 crore to ₹5 crore | ₹50 | ₹5,000 |
| Above ₹5 crore | ₹50 | ₹10,000 |
The caps come from Notification 19/2021-CT for GSTR-3B and 20/2021-CT for GSTR-1; above ₹5 crore the Section 47 limit of ₹5,000 per Act applies. Each return is separate, so a business 30 days late with both GSTR-1 and GSTR-3B pays two fees.
Example: a small Pune shop with ₹80 lakh turnover files the October 2026 GSTR-3B on 30 November instead of 20 November. That is 10 days, so ₹500: ₹250 CGST and ₹250 SGST. If it waits 60 days, the fee hits the ₹2,000 cap and stays there.
GSTR-9 annual return late fee
From FY 2022-23, Notification 07/2023-CT made the annual return fee depend on turnover of that year:
| Turnover of the FY | Per day | Maximum |
|---|---|---|
| Up to ₹5 crore | ₹50 | 0.04% of turnover in the State |
| ₹5 crore to ₹20 crore | ₹100 | 0.04% of turnover in the State |
| Above ₹20 crore | ₹200 | 0.5% of turnover in the State |
Good news for small businesses: from FY 2024-25, anyone with aggregate turnover up to ₹2 crore does not have to file GSTR-9 at all (Notification 15/2025-CT). No filing, no late fee. Where GSTR-9C is also needed, the fee runs until both are filed (Circular 246/03/2025).
Things people get wrong
Late fee can't be paid from input tax credit; it is cash only. It is also charged on a nil return, which surprises many first-time filers. And it is not the same as interest. If tax was paid late as well, add interest at 18% a year using the GST interest calculator.
FAQs
What is the late fee for GSTR-3B per day?
Is there a late fee on nil GSTR-1?
What is the maximum late fee for GSTR-9?
Do I need to file GSTR-9 if turnover is below ₹2 crore?
Can late fee be paid from ITC?
Sources: Section 47, CGST Act; Notifications 19/2021-CT, 20/2021-CT, 07/2023-CT, 15/2025-CT; Circular 246/03/2025-GST. Special cases (cancelled registrations, amnesty windows) are not covered; check with your CA.