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Amazon QuickBooks Integration: Automate Your Data Sync

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Sync Amazon orders, fees, refunds, reimbursements, and payouts to QuickBooks
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Track FBA and FBM inventory and calculate COGS
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Categorize Amazon fees with Smart Rules
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Reconcile Amazon payouts to your bank
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Record Amazon-withheld marketplace tax correctly, without inflated liabilities
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How it works

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1. Integrate

Connect Amazon and QuickBooks to the Synder app.

2. Customize

Personalize Synder to align perfectly with your business needs.

3. Reconcile

Enjoy streamlined bookkeeping and smooth reconciliation.

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What you get with Amazon QuickBooks integration

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What you get with Amazon QuickBooks integration

Automated data sync

Synder connects to Amazon Seller Central and automatically syncs the full transaction picture into QuickBooks: orders, refunds, fees, reimbursements, payouts, and FBA/FBM activity, using settlement reports and Amazon’s Financial Events API.

Flexible sync modes

Choose Per Transaction sync for detailed Amazon orders with SKUs, quantities, and itemized fees, or Summary Sync for a single daily, monthly, or payout-level entry in QuickBooks, with safe rollback in both modes.

Fee categorization with Smart Rules

Synder breaks down Amazon settlement data by fee type – fulfillment, storage, ads, shipping, reimbursements – and automatically maps each to the correct QuickBooks account, so your P&L shows true Amazon costs, not one lumped expense.

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Amazon payout reconciliation

Synder records Amazon activity in a clearing account and posts a matching transfer when the payout arrives, so bank deposits match QuickBooks exactly, even for multicurrency payouts without FX rounding issues.

FBA inventory tracking and COGS calculation

Upload your product costs once, and Synder takes it from there, automatically calculating COGS for each sale, updating inventory per unit sold, matching SKUs across FBA and FBM, and tracking storage, removal, and inbound fees separately so nothing gets lumped together.

Marketplace facilitator tax withheld by Amazon

Synder records Amazon-collected and remitted sales tax as a separate non-taxable line item with a corresponding expense, so Sales Tax Payable stays accurate and your books reflect tax handled by Amazon without manual adjustments or overstated liabilities.

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To find the best solution for your business, book a call with our accounting automation expert. We'll dive into your needs and show how Synder can optimize your bookkeeping processes. Let us walk you through it!

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Amazon + other platforms you use

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30+ pre-built integrations, unlimited custom builds
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Easy multichannel reconciliation
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Unified financial reporting across all platforms
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Why should you choose Synder?

Compliance-first security

SOC 2 Type 2 certified, GDPR and HIPAA compliant, with end-to-end encryption built in. Synder keeps your data secure, helps you pass audits, and scales safely as you grow.

Reliable support

Synder's support team knows ecommerce accounting inside and out. Get help whenever you need it - chat, email, video call, or screen share. You're never stuck sorting things out alone.

Committed to your needs sync

Set up transactions exactly how you need them: rename line items, pull in custom data, adjust tax codes, and map everything to match your workflow perfectly.

Detailed reporting

Synder breaks down revenue by product, location, payment method, or date, from monthly snapshots to year-end reports. Get the data you need to make decisions.

What other Synder users say

"Of all the apps that I use to help make QuickBooks more functional, Synder is the one I have the least complaints about. Before Synder, when our bookkeeper had to do it manually, it was taking between 5-10 hours a week of importing data, adding data, changing forms and sheets. With over 150k records now processed automatically, it's been a huge savings of both time and money."

Meghan S.
Operations Manager at Rad
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FAQ

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