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1. Stock Sync – Qty Update by SKU

Rating: 4.7 out of 5

Key Features:

  • Effortlessly connect QuickBooks with your offline inventory management system and maintain consistency across platforms.
  • Whether it’s CSV, XLS, XSLX, XML, JSON, TXT, or EDI, Stock Sync has you covered.
  • Set your preferred schedule for inventory updates and let automatically handle the rest.
  • Simply manage supplier and dropshipper feeds to optimize your supply chain.
  • Easily choose which product to include or exclude from feeds and painlessly remove items from your Shopify app store.

2. QuickBooks Online or Xero Sync

App Store Rating: 4.8/5
Starting from $15/month

Key Features:

  • Integrate seamlessly with your Shopify stores.
  • Efficiently manage your order and sales data.
  • Keep track of your inventory management across multiple channels to prevent over-selling and stockouts.
  • Save time by automating the transfer of orders, customer information, and products.

3. Flowify for QuickBooks Online:

Rating: 5/5
Starting from just $9 per month

Key Features:

  • Combine transactions for QuickBooks Desktop and QuickBooks Online.
  • Facilitate the collection of daily summary of sales through PayPal.
  • Streamline accounting processes with automation.
  • Effortlessly fetch Shopify payments data.
  • Integrate seamlessly with QuickBooks online.

4. QuickBooks or Xero Sync by A2X

Rating: 4.9/5
Starting from $19/ month

Key Features:

  • With automated data entry, you’ll be free from manual bookkeeping.
  • Ensure accurate financial reports in Xero with synchronized e-commerce data.
  • Effortlessly match Shopify payouts with your bank deposits.
  • Helps in accounting and taxes deductions mapping. Create sales receipts in QuickBooks Online for new Shopify paid orders. A2X helps you create invoices that are consistent and easily accessible.

5. QuickBooks Commerce

App Store Rating: 3.7/5
Starting at $39/month

Key Features:

  • Keep track of your stock levels accurately, even when handling inventory across multiple warehouse locations.
  • Handle sales orders from different sales channels, including eCommerce, marketplaces, and wholesale, all in one convenient place.
  • Get insights into your business performance with detailed reports and sales data.
  • Easily sync your own private wholesale business with your Shopify account for added growth opportunities.
  • This Shopify QuickBooks app offers demand forecasting capabilities that help you plan stock inventory with precision.

6. ChannelApe Fulfillment

App Store Rating: 4.9/5
Starting from $350/month

Key Features:

  • It partners with top-tier 3PL organizations, providing fulfillment solutions for today’s leading brands. Your products are strategically placed in warehouses across the world.
  • They have an extended network across the US, UK, Europe, and Canada. You can easily integrate one or multiple warehouses for efficient global operations, saving both time and costs.
  • Streamlines the process of fulfilling orders, making sure your customers receive their products promptly.

7. Connex for QuickBooks Online

App Store Rating: 4.5/5
Starting from $49/month

Key Features:

  • It syncs data between your Shopify store and QuickBooks Online, ensuring that changes made in one platform are reflected in the other.
  • Set up filters to sync specific orders or customers, providing you with control over what gets transferred.
  • It automatically transfers sales data, customer information, product data, and discounts from your Shopify store to QuickBooks Online, saving you time and from manual data entry.
  • This app ensures your QuickBooks Online inventory updates sync with your Shopify store in real time to prevent overselling.

8. Connex for QuickBooks Desktop

App Store Rating: 4.4/5
Starting from $69/month

Key Features:

  • This app bridges the gap between your Shopify store and QuickBooks Desktop software.
  • Saves time by automating the transfer of order data, customer data, product information, discounts, and more to your QuickBooks Desktop.
  • There’s no need to download additional software or install complex plugins. You can easily integrate in just a matter of time.
  • You can also tailor the integration to your business’s specific needs.

9. QuickBooks Daily Summary Sync

App Store Rating: 4.9/5
Starting from $9.99/month

Key Features:

  • Get a concise overview of your daily sales and transactions in QuickBooks Online, simplifying your financial tracking.
  • Access accurate reports without the hassle of manual data input.
  • With just one click, you can link your Shopify accounts and effortlessly map out your chart of accounts. And if you need any help, the support team is always at your service.
  • Regardless of refunds, exchanges, or fees, this app ensures you receive clean and error-free data every time.

10. QuickBooks | Xero sync ‑ Synder

Shopify App Store Rating: 4.9/5
Starting from $13.88/month

Key Features:

  • Easily sync your Shopify sales data with QuickBooks Online customers, catering to different accounting preferences.
  • The app categorizes transactions for you, saving you valuable time.
  • It can generate invoices and receipts directly from your Shopify orders, ensuring your accounting is thorough.
  • If you sell on multiple sales channels like Shopify stores, Etsy, etc, you can connect all your orders in one place, making it easy to manage.
  • It’s easy to set up, taking just 30 minutes.

What Should You Look for in QuickBooks Online Integration Apps?

Your business operations can be considerably improved, and your financial management can be streamlined by integrating QuickBooks Online with other apps. But it’s crucial to consider a few criteria while selecting the best app for QuickBooks Online integration. Here’s what you should look for when evaluating Shopify QuickBooks integration apps:

  • Seamless Data Syncing: The QuickBooks integration should provide real-time or automated data syncing between QuickBooks Online and the other applications to ensure that your financial information is updated and accurate without manual intervention.
  • Supported Data Types: Check whether the integration supports the types of data you need to sync, such as invoices, sales receipts, expenses, customers, products, and more. The broader the range of supported data, the more comprehensive your financial management will be.
  • Data Accuracy: Accurate data transfer is crucial. Ensure the integration handles information precisely, avoiding duplicates of all your orders, mismatched entries of cash flow, or revenue data loss during the syncing process.
  • Updates and Maintenance: The integration should be regularly updated to remain compatible with any changes in QuickBooks Online or other connected applications. Make sure that the integration provider offers ongoing maintenance and updates.


In conclusion, integrating Shopify with QuickBooks Online can reshape your e-commerce financial management. QuickBooks Online integration apps help you maintain financial reports by automating data transfer, minimizing manual maintenance of sales order records, and minimizing sales tax errors.


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