High Court Quashes Orders Related to IGST Reconciliation — Directs Authorities to Reflect Tax Paid. The Court found that the denial of Input Tax Credit was improper due to technical glitches in the Respondents' systems.

High Court: Bombay High Court Bench: BOMBAY
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Case Note & Summary

The Writ Petition was filed by the Petitioner seeking directions for the reconciliation and reflection of Integrated Goods and Services Tax (IGST) amounting to Rs. 1,19,38,621/- paid during the financial year 2019-2020 on the GST portal. The Petitioner contended that due to a technical glitch in the integration between ICEGATE and GSTN, the IGST paid was not correctly reflected, which was not due to any fault of their own. The Respondents had issued a series of orders based on incomplete system-generated data, leading to a double financial burden on the Petitioner. The Petitioner sought to quash the Adjudication Order and the Order in Appeal, arguing that the Respondents failed to rectify the technical issues despite having supporting evidence. The Respondents opposed the Petition, asserting that the orders were lawful. The Court noted that the non-reflection of IGST was due to the Respondents' electronic systems and that the Petitioner should not be penalized for these lapses. The Court quashed the impugned orders and directed the Respondents to reconcile the IGST amount and reflect it in the Electronic Credit Ledger, while keeping all parties' contentions open for future consideration. The Writ Petition was disposed of accordingly.

Headnote

A) Taxation - Integrated Goods and Services Tax - Denial of Input Tax Credit - Integrated Goods and Services Tax Act, 2017, Section Not mentioned - The Petitioner sought reconciliation of IGST paid on imports which was not reflected due to a technical glitch in the electronic systems maintained by the Respondents. The Court held that the Petitioner should not suffer for the Respondents' failure and directed them to reconcile the IGST amount and reflect it in the Electronic Credit Ledger (Paras 1-9).

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Issue of Consideration

Whether the Respondents were justified in denying Input Tax Credit due to non-reflection of IGST on the GST portal.

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Final Decision

The Court quashed the Adjudication Order and the Order in Appeal, directing the Respondents to reconcile and reflect the IGST amount in the Electronic Credit Ledger.

Law Points

  • Integrated Goods and Services Tax
  • electronic systems
  • Input Tax Credit
  • technical glitches
  • judicial review
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Case Details

2026 LawText (BOM) (10) 146

WP 7551 of 2026

2026-10-29

Sandesh D. Patil, M. S. Karnik

Anant Bobe, M. P. Sharma, Mamta Omle, Ram Ochani, Abhishek Mishra

Maksur Analytical Systems

Union of India, Ministry of Finance, Additional Commissioner, Assistant Commissioner, Superintendent

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Nature of Litigation

Writ Petition for reconciliation of IGST

Remedy Sought

Directions to reconcile and reflect IGST in Electronic Credit Ledger

Filing Reason

Non-reflection of IGST due to technical glitches

Previous Decisions

Orders passed based on incomplete data

Issues

Justification for denying Input Tax Credit Impact of technical glitches on tax obligations

Submissions/Arguments

Petitioner argued for reconciliation due to technical failures Respondents contended that orders were lawful

Ratio Decidendi

The Court held that the Petitioner should not be penalized for technical failures of the Respondents' systems, emphasizing the need for proper reconciliation of tax paid.

Judgment Excerpts

The Petitioner is seeking directions to reconcile and give effect to the Integrated Goods and Service Tax IGST amounting to 1,19,38,621/- The impugned Orders are therefore on the face of it unsustainable as the same are solely based on non-reflection of the IGST on the GST Portal.

Procedural History

The Writ Petition was filed seeking quashing of the Adjudication Order and the Order in Appeal, followed by hearings and submissions from both parties.

Acts & Sections

  • Integrated Goods and Services Tax Act, 2017:
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