Karnataka High Court allows Shilpa Medicare petition, quashes GST show cause notice under Rule 96(10)

Court follows earlier rulings that struck down the contentious rule as unconstitutional

The Karnataka High Court at Kalaburagi has granted relief to M/s Shilpa Medicare Ltd by quashing a show cause notice (SCN) issued under Rule 96(10) of the Central Goods and Services Tax (CGST) Rules, 2017. Justice S.R. Krishna Kumar, presiding over the single bench, allowed the writ petition on 4 August 2026, relying on a series of judgments from multiple high courts that had declared the rule ultra vires and unenforceable.

The dispute over IGST refunds

Shilpa Medicare, a pharmaceutical firm based in Raichur, Karnataka, had exported goods on payment of Integrated Goods and Services Tax (IGST) and subsequently claimed a refund. However, on 18 January 2024, the Additional Commissioner of Central Tax (Preventive) issued a show cause notice proposing to deny the refund on the ground that the petitioner had availed benefits under certain exemption notifications, allegedly barring it from claiming IGST refund under Rule 96(10) of the CGST Rules.

The petitioner challenged the SCN along with the constitutional validity of Rule 96(10), arguing that the provision was manifestly arbitrary and inconsistent with Section 16 of the IGST Act, 2017. It sought a writ of certiorari to quash the notice and a mandamus directing the authorities to process its refund claim.

A rule already struck down and omitted

The controversy centred on Rule 96(10), which prohibited exporters who had received supplies under specified exemption notifications from claiming a refund of IGST paid on exports. The Kerala High Court in Sance Laboratories Private Limited v. Union of India (2024) had struck down the rule as ultra vires Section 16 of the IGST Act and manifestly arbitrary. Prior to that judgment, the government itself had omitted Rule 96(10) with effect from 8 October 2024 via Notification No. 20/2024-Central Tax, albeit without a saving clause for pending proceedings.

Following the Kerala ruling, several high courts – including Uttarakhand, Gujarat, Delhi, and Bombay – held that the omission of the rule without a savings clause meant all pending proceedings based on it stood abated. In Hikal Ltd v. Union of India , decided on 9 December 2025, the Karnataka High Court itself had quashed an identical SCN and directed refund of IGST amounting to ₹75.55 lakh along with interest.

Court’s reasoning: binding precedents and settled law

Justice Krishna Kumar noted that the issue was “directly and squarely covered” by the Hikal Ltd judgment. Drawing extensively from the Bombay High Court’s decision in Hikal and the Kerala High Court’s analysis in Sance Laboratories , he observed that Rule 96(10) had been omitted unconditionally, and no savings clause existed to protect proceedings that were not “transactions past and closed”.

The court quoted from Hikal Ltd : “ Following the omission… in the absence of any saving clauses or the benefit of Section 6 of the General Clauses Act, all pending proceedings… are not preserved and will stand lapsed. ” It also adopted the finding that the rule created “hostile discrimination” between exporters who sought refund under Section 16(3)(a) read with Rule 89 and those under Section 16(3)(b) read with Rule 96.

Since the SCN had not culminated in a final order that could be considered a closed transaction, the court held that it could not survive.

Final order: SCN quashed, refund directed

The court allowed the petition in terms of its earlier order in Hikal Ltd . Consequently, the impugned show cause notice dated 18 January 2024 and all further proceedings were quashed. The respondent authorities were directed to refund IGST amounting to ₹75,55,123 along with applicable interest to the petitioner “as expeditiously as possible and at any rate within a period of three months from the date of receipt of a copy of this order”.

Key Observations

The court underscored that the omission of Rule 96(10) without a saving clause rendered the rule a “dead letter” for all pending proceedings. It reiterated that the rule’s restrictions were never intended by Parliament and that continuing such proceedings would be “manifestly arbitrary”.

Implications for exporters

The decision reinforces the position that IGST refund claims cannot be denied on the basis of Rule 96(10) for the period between 23 October 2017 (when the rule came into effect) and 8 October 2024 (when it was omitted). Exporters with pending SCNs or refund denials based on this rule can expect similar relief, subject to the facts of their cases.