Integration Guide
WooCommerce QuickBooks Online Connector
Connect your WooCommerce and QuickBooks Online Integration to automate any workflow. Sync WooCommerce- QBO Individual/summarized sales, track COGS, payment entry. Equip your WooCommerce store with the power of SyncTools, and welcome the future of fast, easy, and error-free accounting!
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The only WooCommerce-QuickBooks Online connector, you’ll ever need!
TL;DR: SyncTools connects WooCommerce to QuickBooks Online — automatically syncing sales, refunds, gateway fees, taxes, shipping, and COGS into the correct QuickBooks accounts, reconciled to your bank deposit. Setup takes 15–30 minutes with no developer required.
Instantly sync WooCommerce with QuickBooks Online and boost your accounting efficiency!
- Effortlessly manage sales, purchases, refunds, payments, expenses, transaction fees, and taxes.
- Categorize your WooCommerce sales at granular level with channel wise orders sync selection.
- Unlock the power of SyncTools for the best WooCommerce - QuickBooks Online integration.
- Accelerate your accounting productivity with SyncTools
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WooCommerce - QuickBooks Online integration & get accurate financial data
Sync WooCommerce transactions to QuickBooks Online
With SyncTools, you can sync all important transaction details such as WooCommerce sales, transaction fees, payment, discount, shipping, and tax.
This integration also enables you to sync purchase orders as bill and create a vendor credit, refunds as refund receipt/credit memo & summarized sales with product mapping to generate accurate P&L and balance sheet reports without any hassle.
Individual/Summarized sales sync
This allows merchants to sync sales data to QuickBooks Online at a granular level as an invoice, sales receipt & estimate either individually or in summarized form.
This helps you with the flexibility to choose how your sales data is synced to QuickBooks Online, enabling you to customize your financial reporting and analysis.
Track COGS and other metrics across all WooCommerce stores
By syncing COGS data from WooCommerce to QuickBooks Online integration, you can keep track of the cost of each product sold accurately.
This helps you make informed business decisions about pricing, inventory, and profit margins. And helps you generate accurate financial reports that reflect your true profitability.
Advance - Tax setting rules
Easily schedule your taxes for USA, UK & different markets easily with tax-setting rules based on country & region wise & other possible tax rates.
Real-Time data sync
With this connector, you can sync WooCommerce data in real-time with QuickBooks Online ensuring that your accounting records are always up-to-date.
This means you can access the latest financial data and make informed business decisions based on accurate and current information.
Synchronize the payment entry to QuickBooks Online
SyncTools helps you synchronize the payment entry to QuickBooks Online when an order is paid in WooCommerce.
Automate multiple WooCommerce store transactions to same QuickBooks Online
Effortlessly synchronize transactions from multiple WooCommerce stores to a single QuickBooks Online account.
Sync WooCommerce transactions as journal entry to QuickBooks Online
Synchronize WooCommerce transactions seamlessly as journal entries into QuickBooks Online on daily, weekly or monthly basis.
Why choose SyncTools?
Increased efficiency
With the ability to sync sales, purchase, refunds, summarized sales, and COGS (Cost of Goods Sold), your business can streamline its financial operations and reduce the time and effort required for manual data entry and reconciliation.
Improved accuracy
Manual data entry can result in errors, which can have significant financial consequences. By automating the process with your Shopify QBO integration product, you can improve the accuracy of your financial data and reduce the risk of errors.
Better financial insights
With your product’s capability to sync and summarize sales and COGS, you can gain a clearer understanding of your business’s financial performance and make data-driven decisions that can help drive growth.
Time and cost savings
Automating the shopify and QuickBooks Online integration can save your business time and money by reducing the need for manual data entry and reconciliation. This can also free up your team’s time to focus on other important tasks.
Manage your bookkeeping effortlessly
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MonthlyYearlySave 12%
Free(Life-Time)
$0$0
USD/Month
USD/Year
-
Upto **200 transactions/month**
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Lite
$19
$200
USD/Month
USD/Year
-
Upto **200 transactions/month**
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Basic
$39
$412
USD/Month
USD/Year
-
Upto **500 transactions/month**
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MOST POPULAR
Standard
$59
$623
USD/Month
USD/Year
-
Upto **2000 transactions/month**
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Plus
$89
$940
USD/Month
USD/Year
-
Upto **5000 transactions/month**
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Add Ons
$ 5 per 100 additional transactions (for all plans)
$ 20 per business entity/months
More than 5000 orders?
[Contact sales!](mailto:sales@synctools.ai)
Compare plans and features
Usage
Free (Life-Time)
Lite
Basic
Standard
Plus
Monthly
$0 USD/Month
$19 USD/Month
$39 USD/Month
$59 USD/Month
$89 USD/Month
Yearly
$0 USD/Year
$200 USD/Year
$412 USD/Year
$623 USD/Year
$940 USD/Year
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Limits
Monthly Order Volume
Upto 200 transactions/month
Upto 200 transactions/monthy
Upto 500 transactions/month
Upto 2000 transactions/month
5000 transactions/month
Access to Historical Data
3 Months history
3 Months history
6 Months history
12 Months history
12 Months history
Supported WooCommerce Store
1 Store
1 Store
2 Stores
5 Stores
5 Stores
Linked QuickBooks Accounts
1
1
2
3
3
Additional Users Accounts
1
2
3
Unlimited
Unlimited
+
Features
Class and Location Mapping
COGS Synchronization
Monthly
Daily and monthly both
Daily and monthly both
Daily and monthly both
Tax Synchronization
Gift Card Synchronization
Default
Default
Default
Default
Default
+
Sales Data Grouping
By Payment Gateway
By Country
By Sales Channel
By Product Category
By Province/State
+
Summarized Sync
Mode
Manual
Manual & Auto
Manual & Auto
Manual & Auto
Manual & Auto
Frequency
Monthly
Daily, Weekly, Monthly
Daily, Weekly, Monthly
Daily, Weekly, Monthly
Daily, Weekly, Monthly
Send Sync Report via mail
Daily
Daily
Daily
Daily
Tax Threshold Notifications
Financial Summary by SyncTools
+
Individual Sync
Product, Customer, Sales
Tax, Refunds, Tips, COGS, Gift card
Categorisation based on Sales Channel
Payout and Fees
+
Other
Custom Development Services
Support
Email support, FAQs
Email support, FAQs
Phone Call, email support, FAQs
Phone Call, Zoom meeting, email support, FAQs
Phone Call, Zoom meeting, email support, FAQs
Want custom implementation in SyncTools-
Shopify QuickBooks Online connector?
Let us know what you’re looking for, and we will get it up and running.
[Contact sales!](mailto:sales@synctools.ai)
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How to Connect WooCommerce to QuickBooks Online in 5 Steps
Connecting WooCommerce to QuickBooks with SyncTools takes under 20 minutes and requires no developer access.
Step 1 — Install SyncTools and connect your WooCommerce store Install the SyncTools plugin or connect via API key. Grant permissions so SyncTools can read your WooCommerce orders, refunds, and transaction data.
Step 2 — Connect your QuickBooks Online account In SyncTools, go to Accounting System → QuickBooks Online. Complete the Intuit OAuth flow. SyncTools reads your chart of accounts and pre-fills a recommended account mapping.
Step 3 — Map WooCommerce transactions to QuickBooks accounts Assign each transaction type to the correct account: gross sales → Sales Revenue, gateway fees → Merchant Fees, taxes → Sales Tax Payable (liability), refunds → Sales Returns, COGS → Cost of Goods Sold.
Step 4 — Choose summarized or individual sync Use summarized sync (daily journal entries) for high-volume stores or individual sync (one QuickBooks record per WooCommerce order) for granular reporting.
Step 5 — Run your first sync and reconcile Click Sync Now. In QuickBooks Banking, the WooCommerce deposit matches the SyncTools entry automatically — click Match and you’re done.
See also: How to Connect WooCommerce to QuickBooks Online — full step-by-step walkthrough with chart of accounts setup.
See how we compare
Evaluating alternatives before you commit? See how SyncTools stacks up:
- SyncTools vs Webgility — WooCommerce accounting integration comparison
- SyncTools vs A2X — feature and pricing breakdown
FAQs
How does this WooCommerce-QuickBooks Online integration work?
SyncTools connects to your WooCommerce store via the WooCommerce REST API and your QuickBooks Online company via the Intuit API. It reads every WooCommerce transaction — sales, fees, refunds, and taxes — and posts each to the correct QuickBooks account automatically, without CSV exports or manual journal entries.
How long does it take to integrate and set up WooCommerce with QuickBooks Online? Will you help me with configuring my account or do I need to do it all by myself?
As an Ecommerce accounting expert, the process normally takes 15 to 30 minutes to get your account syncing done. Our team will help you to configure your account and ensure that it is properly synced. You won’t need to worry about setting up your account yourself – we’ll take care of everything for you.
Please feel free to contact us at sales@synctools.ai if you have any questions or require additional support.
Do I need to take a trial with my live QuickBooks Online account or can i try this with QuickBooks Online sandbox also?
No, You don’t need to connect your live account for a trial if you don’t want to. Yes, you can use the QuickBooks Online sandbox also and test the system.
Does SyncTools support COGS synchronization to QuickBooks Online?
Yes. SyncTools syncs WooCommerce product cost data to QuickBooks Online as COGS line items — either per order or in summarized batches. Each sale posts gross revenue to your income account and the corresponding COGS to a dedicated expense account, giving you accurate gross margin in your QuickBooks P&L. COGS sync requires that product costs are set in WooCommerce before the order syncs.
Does this WooCommerce QuickBooks Online integration support summarized sales synchronization as i don’t want the individual orders to sync to QuickBooks Online?
Yes. SyncTools supports summarized sales sync to QuickBooks Online on a daily, weekly, or monthly basis — posting a single invoice or journal entry per period instead of one entry per order. Ideal for high-volume WooCommerce stores where individual order entries would slow down QuickBooks. Gross sales, fees, refunds, and taxes are still mapped to separate accounts in summarized mode.
What are the entities i can synchronize from WooCommerce with the help of SyncTools?
You can synchronize customers, products, billing and shipping addresses, and sales orders as an invoice with sales order line items SKU, price, description, tax rate, discount, etc…, classes, refunds as credit memo or refund receipt, customer payment as payment, purchase orders as purchase order or bill and raise a vendor credit in Quickbooks Online.
What about historical data? Can you sync that too?
Yes, historical data can be synced with additional cost under the STANDARD & PLUS plan.
Is my financial data secure with the integration?
Yes, This WooCommerce Quickbooks Online connector uses secure and encrypted data transfer protocols to ensure the safety and security of your financial data.
What happens to my customer data? Will it be safe with your system? How do you ensure the safety and confidentiality of my customer data while it's being synced between WooCommerce and QuickBooks Online?
We take the security and privacy of your customer data seriously. Our system securely transfers data between WooCommerce and QuickBooks Online without storing any of your data on our servers. We redact personally identifiable information to further protect your customer’s privacy. You can trust that your customer data is safe with us.
Get started with a free trial
Let us know what you’re looking for, and we will get it up and running.
[Start a free-trial now!](https://app.synctools.ai/on-boarding)Further Reading
- WooCommerce QuickBooks Integration Guide — step-by-step setup walkthrough for connecting WooCommerce to QuickBooks Online
- WooCommerce Accounting Guide — bookkeeping fundamentals every WooCommerce seller needs
- Automated Reconciliation for eCommerce: What It Is & How to Set It Up — how automated reconciliation works, why manual matching fails at scale, and setup in under 30 minutes
- QuickBooks Automation for eCommerce — how to eliminate manual data entry and save hours monthly
- eCommerce Bookkeeping Fundamentals — chart of accounts setup and reconciliation principles for online sellers
- eCommerce Sales Tax Compliance — economic nexus thresholds, marketplace facilitator rules, and how to stay compliant
Considering alternatives?
- SyncTools vs A2X — feature and pricing breakdown
- SyncTools vs Webgility — how SyncTools compares on accuracy, pricing, and support
- SyncTools vs Synder — side-by-side comparison for WooCommerce sellers
Related integrations:
- WooCommerce Xero Integration — for WooCommerce sellers using Xero instead of QuickBooks
- Shopify QuickBooks Online Integration — if you run Shopify alongside WooCommerce
Ready to automate your accounting sync?
30-day free trial. No credit card required. All features included.