Nov 21, 2025 10:19:42 AM

Best Accounting Software for Amazon Sellers in 2026

Introduction: Why Accounting Software Matters for Amazon Sellers

Accounting for Amazon businesses has become more complex than ever. Daily transactions, refunds, reimbursements, hundreds of fee types, and delayed settlements make manual bookkeeping slow and error-prone. Choosing the best accounting software for Amazon sellers is essential for staying profitable, compliant, and efficient.

Many sellers struggle with missing fee details, inaccurate COGS, and difficulties connecting Amazon data to standard accounting tools. By using the amazon best accounting software, you can automate data imports, categorize transactions, and track profit per SKU. This article reviews the most important features, compares leading tools, and explains how to choose the right platform in 2026.

Key Features to Consider

Accurate ecommerce accounting requires software designed specifically for Amazon. Below are the features that matter most when evaluating the best accounting tools for Amazon sellers.

Direct Amazon Seller Central Integration

Your software must sync orders, fees, promotions, refunds, reimbursements, and settlements automatically. This ensures reliable records without manual entry.

Full FBA Fee Support

FBA adds costs such as storage, fulfillment, removals, and inbound shipping. Tools that handle these fees correctly make it easier to find the best amazon accounting software that fits your workflow.

SKU-Level COGS and Inventory Tracking

Accurate COGS is essential for understanding margins. Without it, profitability reports will be misleading. Good software should allow per-batch or per-SKU costing.

Automatic Transaction Categorization

Automation saves time and reduces mistakes. Your software should recognize Amazon fee types and map them to the right accounts.

QuickBooks, Xero, and Sage Compatibility

Most businesses rely on these accounting platforms. The best accounting software for Amazon must sync cleanly with them.

Reporting and Analytics

You need reliable P&L statements, SKU profitability reports, and trend insights to make informed decisions.

Tax Compliance Tools

VAT, OSS, and sales tax become easier when your accounting software supports automated tax mapping.

Scalability

If you sell across Shopify, Walmart, TikTok, or multiple Amazon marketplaces, you need the best accounting software for Shopify and Amazon to consolidate everything.

NeonPanel: A Modern Solution for Amazon Sellers

NeonPanel is built specifically for ecommerce companies that need accurate financials and deep Amazon integration. It automatically imports orders, fees, refunds, and settlements from Amazon. NeonPanel assigns landed costs to each batch, calculates FIFO COGS, and syncs inventory across multiple warehouses. These capabilities make it a strong option for anyone looking for the best accounting software for Amazon FBA sellers.

The platform integrates with QuickBooks and Xero, providing automated journal posting and real-time financial visibility. Sellers also gain access to analytics dashboards showing gross profit, SKU-level margins, and channel performance. This gives NeonPanel a clear advantage over many alternatives that stop at basic transaction import.

NeonPanel also supports multi-channel operations, making it ideal for brands that sell on Shopify and Amazon simultaneously. This is valuable for businesses searching for the best accounting software for Shopify and Amazon, because it unifies financial and operational data under one system. Its scalability and automation make it a powerful choice for high-volume sellers.

Other Alternatives

There are various other software solutions on the market. To understand them better, you can review competitor guides such as:

Below are the main categories of alternatives:

General Accounting Software

QuickBooks, Xero, Wave, Zoho Books, and Sage provide traditional bookkeeping features. They are reliable but lack ecommerce-specific automation. Without add-ons, they cannot serve as the best accounting tools for Amazon sellers because they do not process settlements or categorize Amazon fees.

Automation Tools

These platforms import orders and settlements, categorize basic fees, and simplify reconciliation. They help sellers track revenue but may not include inventory or COGS functionality.

Inventory and COGS Tools

These tools calculate COGS accurately and track batches. However, they may not integrate well with accounting systems, making them insufficient as a complete solution.

Ecommerce Accounting Platforms

These offer deep Amazon integration, fee breakdowns, and profitability analysis. Many sellers consider them when comparing the best amazon fba accounting software, especially those with high order volume.

Your choice will depend on your volume, complexity, and number of SKUs.

How to Choose the Right Software for Your Business

Every Amazon business has unique needs. Consider the following recommendations:

New Amazon FBA Sellers

New sellers should prioritize simple tools that automate basic imports and categorize Amazon fees effectively.

Growing Brands

Companies expanding across multiple channels require the best accounting software for Shopify and Amazon, along with automated COGS and profitability reporting.

High-Volume Sellers

Large sellers benefit from platforms that combine automation with accurate batch-level costing. These businesses need the best accounting software for Amazon to avoid financial errors that impact taxes and profitability.

Multi-Channel Sellers

If you sell on multiple marketplaces, choose software that unifies financial data across channels to avoid inconsistencies.

International Sellers

If you operate in several regions, look for platforms with multi-currency support and automated tax compliance.

Best Practices for Amazon Accounting

Even the best accounting software for Amazon FBA sellers performs best when paired with strong internal processes. Follow these practices:

Automate settlement and order imports.
Reconcile refunds and reimbursements regularly.
Track landed costs for accurate SKU-level COGS.
Use dashboards to analyze SKU profitability.
Maintain consistent P&L reviews.
Set up tax rules early to avoid compliance issues.
Review negative-margin SKUs weekly.

These steps help you get the most value from the amazon best accounting software and ensure long-term financial stability.

Conclusion

The best accounting software for Amazon sellers in 2026 offers automated imports, inventory tracking, accurate COGS, and clear profitability insights. The right solution depends on your sales volume, SKU count, and marketplaces.

NeonPanel is a modern, scalable option for ecommerce sellers who want precise accounting and automated COGS. With strong integrations and detailed analytics, it helps both Amazon-only and multi-channel sellers gain financial clarity.

When choosing the best amazon accounting software, evaluate several options, compare features, and select the one that aligns with your business goals. The right system will help you improve accuracy, save time, and scale with confidence.