The Problems of Implementation of GST in India

By Annapoorna

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Updated on: Jul 30th, 2025

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3 min read

Soon after India introduced GST on July 1, 2017, the problem of implementation of GST became evident. Despite aiming to simplify taxation, certain issues such as technical glitches and rigid procedures continue to challenge taxpayers and regulators, hindering the reform’s goal of creating a unified national market.

Key Problems of Implementing GST in India

In 2023, more than 1.33 crore taxpayers submitted monthly GST returns, according to the Government of India's public dashboard. This developing base indicates the system's size, which also enhances its value in terms of technical and operational aspects. This section defines the primary problems in implementation of GST:

1. GST’s Multiple Slabs Cause Classification Errors

The existence of five tax slabs, 0%, 5%, 12%, 18%, and 28%, is one of the major implementation problems of GST in India. Firms often misclassify products, which can result in fines, legal problems, and difficulties with compliance. The initial goal of simplicity becomes futile, as it is difficult for MSMEs and retailers, in particular, to figure out the applicable rates.

2. Constant Changes in Return Formats Confuse Taxpayers

Ambiguity is caused by frequent shifts in GST returns, like the pause of GSTR-2 and GSTR-3 or the new GST returns, now being the introduction of Invoice Management System (IMS) and hard-locking of auto-filled GSTR-3B. Small companies without regular access to qualified help are perplexed by changing invoice-matching regulations, reconciliation procedures, and late fee structures.

3. Portal Failures Disrupt Timely GST Compliance

The GSTN portal falling during rush hour is one of the present problems with the implementation of the GST. Technical issues such as slow loading and failing logins result in missed filings and expensive fines.

4. ITC Rules Penalise Buyers for Supplier Defaults

The ITC system introduces additional real-world implementation problems of GST. Even if a buyer pays for a purchase, credit is disallowed if the supplier doesn’t file correctly, affecting working capital and fairness.

5. Compensation Delays Strain Centre-State Relations

Many States face delayed compensation from the Centre. These delays, especially following the COVID-19 pandemic, raise concerns about fiscal autonomy and highlight trust issues within the GST Council structure.

6. Small Enterprises Face High Compliance Costs

SMEs struggle with problems in GST compliance, like tech limitations and costly digital filings. Many must hire consultants to meet obligations, undermining the goal of simplified taxation.

The Judiciary's Role in GST Implementation

Courts in India have played a crucial role in resolving problems in implementation of GST. Many provisions lacked clarity, leading to litigation soon after the tax system was introduced. High courts granted relief in cases where technical glitches on the GSTN portal prevented timely filings, allowing manual submissions in select instances. 

They also clarified ambiguous terms, such as "place of supply," in interstate transactions, which is essential for determining whether IGST, CGST, or SGST applies. However, in several jurisdictions, the establishment of the GST Appellate Tribunal was postponed. This caused a backlog of over 40,000 pending cases, as per a report by the GST Council. Many businesses await redress on issues like ITC reversals, demand notices, and tax interest disputes. The delay hindered resolution and increased compliance uncertainty.

Moreover, several rulings have supported taxpayers when input tax credit was denied due to minor clerical errors, provided the transactions were otherwise valid. These decisions help protect businesses from losing credit over procedural shortcomings.

Judicial interpretation continues to shape GST’s real-world framework. However, the absence of timely institutional redress mechanisms has added to the list of current problems in GST in India.

Despite its unifying objectives, the problem of implementation of GST continues. Various challenges, such as technical, legal, and procedural continue to affect compliance. These implementation problems of GST reflect that the current problems in GST in India need focused reforms for lasting improvement.

Frequently Asked Questions

What are the common GST issues?

Taxpayers frequently face delays in return filing, input credit mismatches, portal errors during high-traffic periods, and confusion over applicable rates due to multiple tax slabs. Small firms also cite rising compliance costs.

What is the biggest issue that taxpayers are facing after the implementation of GST?

The biggest problem in implementation of GST today is the denial or delay of Input Tax Credit (ITC). When suppliers fail to upload correct invoices, buyers’ credits are blocked, affecting cash flows. 

How has GST affected small and medium-sized enterprises (SMEs)?

Maintaining tax compliance appears to be more costly to SMEs. They often lack trained employees or machinery to comply with GST regulations. Their working capital is thus weak due to delayed ITC claims, dialogue issues, and filing errors.

What technical issues have been encountered with the GSTN (GST Network)?

The portal frequently experiences slowdowns, especially on due dates. Taxpayers report error messages, session timeouts, and data mismatches. Users need to regularly update their systems due to frequent changes to return formats.

Are there any difficulties in claiming input tax credit (ITC) under GST?

Yes, data on suppliers has to precisely match ITC claims. Rejected may result from mistakes in invoice numbers, dates, or tax amounts. Additionally, credit has a time limit, so claims submitted after the end date are forfeited, resulting in a financial loss for the claimant.

About the Author
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Annapoorna

Assistant Manager - Content
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I preach the words, “Learning never exhausts the mind.” An aspiring CA and a passionate content writer having 4+ years of hands-on experience in deciphering jargon in Indian GST, Income Tax, off late also into the much larger Indian finance ecosystem, I love curating content in various forms to the interest of tax professionals, and enterprises, both big and small. While not writing, you can catch me singing Shāstriya Sangeetha and tuning my violin ;). Read more

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