Connect Shopify and QuickBooks Online to automatically sync orders, customers, products, taxes, shipping, discounts, payouts, and refunds. Reduce manual bookkeeping, simplify reconciliation, and keep your financial records accurate with real-time synchronization.
SyncTools connects your Shopify store to QuickBooks Online using secure OAuth authentication - no passwords stored, no manual CSV exports. Once connected, Shopify transactions post to QuickBooks within minutes of occurring.
Each item maps to the correct QuickBooks account in your chart of accounts - no guesswork, no manual journal entries after the fact.
Summarized sync
Consolidates daily Shopify activity into clean QuickBooks journal entries. Ideal for high-volume stores.
Individual transaction sync
Mirrors every order, payment, and refund one-to-one in QuickBooks, so your accountant has the detail needed for month-end close.
SyncTools automatically categorizes income and expenses by country and state, product category, or Shopify sales channel (Online Store, POS, Facebook, YouTube). This gives you the most detailed P&L breakdown available in QuickBooks - far beyond what basic integrations offer.
All plans include the complete Shopify QuickBooks integration.
Whether you need every Shopify order recorded individually or prefer summarized journal entries, SyncTools gives you the flexibility to match your bookkeeping process and reporting requirements.
Consolidate sales, refunds, taxes, balances, and COGS into clean journal entries instead of cluttering QuickBooks with thousands of individual transactions.
Sync every Shopify order, payment, product, customer, refund, fee, and COGS individually into QuickBooks Online with perfect one-to-one accuracy.
Let AI automatically map your ecommerce transactions to the right Chart of Accounts. Review, approve, or customize every recommendation with complete confidence.
Automatically map Shopify payout categories to your QuickBooks chart of accounts in minutes. AI analyzes your data and suggests the perfect matches no manual configuration needed.
Recommended by accounting firms managing high-volume e-commerce operations.
AI Account Mapping
Shopify payout categories to QuickBooks
248 accounts analyzed · 6 suggestions ready
Gross sales
200 · Sales
Shopify Payments fees
404 · Merchant fees
Refunds
210 · Refunds
Sales tax collected
820 · GST Payable
Shipping revenue
260 · Shipping income
Gift card sales
215 · Gift card liability
Review suggestions
Apply all at once or adjust individual payout categories.
Gross sales
Excellentto 200 · Sales
Shopify Payments fees
Excellentto 404 · Merchant fees
Refunds
Goodto 210 · Refunds
Sales tax collected
Excellentto 820 · GST Payable
Key features
Stay compliant with tax registration thresholds across every region you operate in. AI monitors your sales and alerts you when approaching limits, backed by official regulatory sources.
Recommended for international sellers and multi-state operations.
Tax threshold monitoring
Alert when sales approach registration limits by state.
AI suggestions
Verified thresholds with official source links.
Texas
High confidence$500,000
Updated from $100,000
United Kingdom
High confidence£90,000
HMRC · VAT registration threshold
Key features
Automatically convert Shopify orders into organized QuickBooks Online financial records. SyncTools maps sales, refunds, taxes, shipping, payment methods, gift cards, and cost of goods sold into the correct accounts, helping finance teams generate accurate Profit & Loss statements and balance sheets without manual bookkeeping.
Automatically organize Shopify sales, refunds, taxes, shipping charges, and payment transactions by country and state before they reach QuickBooks Online. Whether you sell across multiple US states or internationally, SyncTools keeps your accounting structured, making regional reporting, tax preparation, and financial analysis much easier.
Understand which Shopify products, collections, tags, and categories contribute the most to your business. SyncTools automatically maps sales into QuickBooks Online, giving finance teams accurate product-level reporting to analyze revenue trends, compare category performance, and make smarter inventory and pricing decisions.
Selling through Shopify often means managing multiple sales channels. SyncTools automatically categorizes revenue, refunds, shipping, taxes, and transaction fees by channel before syncing the data into QuickBooks Online. This gives finance teams a clear picture of which channels drive growth, profitability, and long-term business performance.
Reconciling Shopify payouts with bank deposits becomes increasingly complex as order volumes grow. SyncTools automatically matches Shopify payouts with QuickBooks Online deposits, including refunds, payment processing fees, and adjustments, helping finance teams maintain accurate books while significantly reducing manual reconciliation work.
Revenue is only part of the story. SyncTools automatically combines Shopify sales, refunds, shipping charges, payment processing fees, inventory values, and Cost of Goods Sold (COGS) in QuickBooks Online to give you an accurate view of your gross profit and net profit. Eliminate manual calculations and gain the financial clarity needed to make confident business decisions.
Setting up SyncTools is quick and straightforward. Securely connect your Shopify store and QuickBooks Online account, customize your accounting preferences, and automate your e-commerce bookkeeping in minutes without coding or manual data entry.
Link your Shopify store and QuickBooks account with secure OAuth authentication in under 2 minutes.
Choose your sync preferences, mapping rules, and automation settings with our guided setup wizard.
Activate the integration and watch your data sync automatically in real-time. That's it!
Join e-commerce businesses that use SyncTools to automatically sync Shopify orders, customers, products, taxes, shipping, refunds, payouts, and inventory with QuickBooks Online. Reduce manual bookkeeping, simplify reconciliation, and gain accurate financial reporting all from one powerful integration.
SyncTools is purpose-built for ecommerce businesses that need more than basic data synchronization. From automated reconciliation to advanced financial reporting, every feature is designed to simplify Shopify accounting while keeping QuickBooks Online accurate and up to date.
AI-powered matching automatically reconciles transactions, saving hours of manual work every week.
Connect multiple Shopify stores to a single QuickBooks account with separate tracking for each location.
Generate comprehensive financial reports with real-time insights into sales, expenses, and profitability.
SOC 2 Type II certified with 256-bit encryption ensuring your financial data stays protected.
See which plan includes the features you need
Standard
Plus
Grow
Elite
Enterprise
Monthly Order Volume
Historical Data
Sales Channel
| Feature Monthly price | Standard $59 USD/Month | Plus $89 USD/Month | Grow $109 USD/Month | Elite $149 USD/Month | Enterprise Custom |
|---|---|---|---|---|---|
| Monthly Order Volume | Up to 2,000 | Up to 5,000 | Up to 10,000 | Up to 25,000 | Unlimited |
| Historical Data | 12 Months | 12 Months | 24 Months | 36 Months | Custom |
| Sales Channel | 5 | 5 | 10 | Unlimited | Unlimited |
Thousands of accounting firms and finance teams rely on SyncTools to streamline reconciliation and save hours every month.
Haider Ali
Business Owner
"Excellent app. Very easy to work with. Very knowledgeable, understanding, and open to any requests."
Tom Brookes
Finance Director
"Best in class. If you use Linnworks and Xero, SyncTools is a phenomenal tool, far superior to any alternative we've tried."
Deborah Whitfield
Customer
"I recently installed SyncTools and it is easy to use. The team worked quickly, kept me informed, and now everything runs smoothly."
Heather Cook
Customer
"Best Xero connector on the market. Excellent customer support and continuous development from an app that does exactly what it says."
Harvey Uppal
Customer
"AWESOME: Excellent tool and has saved us so much time. Credit to the support team for being so helpful in setup and post-setup."
Geoff Ainsworth
Customer
"Excellent tool: Does what it says and connects seamlessly & if you have any issues the support is amazing!"
Nirav Khiroya
Customer
"Fantastic support: The team has always been diligent and proactive about fixing any bugs that arise. Would highly recommend them."
Robert Morris
Customer
"Have been using the Linnworks Xero connector for a couple of years now. It is very reliable and the developers are keen to improve it."
Connie Sturman
Customer
"I just looked in the connector and it looks like they were able to get the purchase orders synced... thank the team for us. Thank you for your help."
Common questions about connecting Shopify to QuickBooks Online with SyncTools
Yes. Shopify can integrate with QuickBooks Online using SyncTools. The integration automatically syncs orders, customers, products, taxes, shipping charges, refunds, payouts, and payment details, eliminating manual bookkeeping and reducing reconciliation errors.
SyncTools can synchronize: Orders, Customers, Products, Inventory, Taxes, Shipping, Discounts, Refunds, Payment methods, Payouts, Journal Entries, and Cost of Goods Sold (COGS).
Yes. SyncTools supports both individual order synchronization and summarized journal entry synchronization. You can choose the option that best fits your accounting workflow and reporting requirements.
Yes. Refunds, returns, shipping adjustments, taxes, and related financial transactions can automatically sync into QuickBooks, helping maintain accurate accounting records.
Yes. SyncTools works with both Shopify and Shopify Plus stores, making it suitable for growing ecommerce businesses and enterprise merchants.
Yes. You can connect multiple Shopify stores to QuickBooks Online while maintaining separate reporting and flexible account mappings for each store.
Most businesses complete setup in less than 10 minutes. Simply connect Shopify and QuickBooks Online, configure your preferred accounting rules, and start syncing automatically.
SyncTools automatically synchronizes new Shopify transactions based on your configured sync schedule, helping QuickBooks Online stay up to date without manual imports.
SyncTools uses secure OAuth authentication, encrypted API communication, and enterprise-grade security practices to protect your Shopify and QuickBooks data.
Yes. You can customize how orders, products, taxes, shipping charges, discounts, payment methods, refunds, and other financial data map into QuickBooks according to your accounting workflow.
Yes. Historical data synchronization is available based on your selected configuration, allowing you to import past Shopify transactions into QuickBooks when required.
If a synchronization issue occurs, SyncTools provides detailed error notifications and logs to help identify the problem. Once resolved, transactions can be synchronized again without creating duplicate records.
