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of Late fee under CGST Act section 47(2) applies for delayed filing of complete annual return comprising both GSTR-9 and GSTR-9C (where required). For taxpayers with turnover exceeding specified thresholds, annual return is deemed incomplete without GSTR-9C. Late fee calculation period extends from due date until complete submission. Per notification 08/2025-CT, excess late fee beyond GSTR-9 filing date is waived for FY 2022-23 and earlier if GSTR-9C is filed by March 31, 2025. No refund available for previously paid late fees. Single late fee applies for the entire delay period rather than separate penalties for GSTR-9 and GSTR-9C.
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