Half my ecommerce clients use Square and every month they ask why their bank deposits don't match their sales. I run their Square exports through the journal entry converter with fee breakdown enabled. The entries show gross sales, processing fees as expenses, and the net deposit matching the bank to the penny.
Square QuickBooks Integration — Fee Breakdown
The A2X-style approach to Square accounting integration. Automatically breaks out gross sales, processing fees, tips, and tax for perfect bank reconciliation.
Free preview — then from $5. Save with bundles.How Integration Works
Export from Square
Dashboard → Reporting → Transactions → Export CSV
Upload and Configure
Upload Transactions Export CSV and choose Journal Entry format
Preview and Download
Review converted data, download Quickbooks Online-ready file
Import to QuickBooks Online
Settings ⚙️ → Import Data → Journal Entries → Upload CSV
Your file is ready for QuickBooks Journal Entry — just upload it, no extra steps needed.
How People Use This
We process everything through Square across three locations. I used to pay $49/month for A2X to sync to QuickBooks, but this tool does the same fee separation and deposit grouping without the subscription. The location data in the memo field lets me track revenue per shop during reconciliation.
Our Square deposits never matched the bank statement until I started using the journal entry format with separate lines for tips, tax, and processing fees. The auto-fix rounding option catches the penny differences that used to take me hours to find during bank reconciliation.
I manage QuickBooks for multiple Square merchants and the negative fee handling is critical. Square exports fees as negative values which confused my old import process. This converter flips them to positive expense amounts automatically, so my clients see the real cost of payment processing on their P&L.
We switched from Synder to this tool for our Square to QuickBooks integration because we needed the by-deposit grouping mode. Each journal entry matches a single Square deposit, which makes month-end bank reconciliation straightforward instead of matching hundreds of individual transactions.
I recommend this to clients running Square who can't justify $30-$80/month for automated sync. They export from Square Dashboard, convert with fee breakdown, and import to QuickBooks Online. The clearing account option works perfectly for clients who already have Sales Receipts in Undeposited Funds.
Integration Questions Answered
Why don't my Square deposits match my bank statement?
Square withholds processing fees (2.6% + $0.10) before depositing. Your bank sees the NET amount. This tool breaks out the gross sales and fees so your books show both correctly.
How is this different from A2X or Synder?
Same accounting methodology - we create journal entries with proper fee breakdown. The difference is A2X/Synder charge monthly fees ($19-$79+). This tool is pay-per-use with no subscription.
How do I export transactions from Square?
Go to Square Dashboard → Reports → Transactions. Select date range and click Export. Choose CSV format.
Square QuickBooks Integration Made Simple
The Net Deposit and Negative Fee Problem
How Our Integration Works
Seamless and Secure Integration
Automatic Column Matching
Fields from your source file are mapped to the right columns in the target format. No manual work needed.
Runs in Your Browser
Integration runs entirely in your browser. No third-party access to your data.
GDPR Compliant
No data leaves your machine. Full EU privacy compliance.
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Field Mapping
How Square Transactions fields map to Quickbooks Online Journal Entry
| Square Transactions | Source Value | Quickbooks Online Journal Entry | Target Value | Note | |
|---|---|---|---|---|---|
Date |
2026-01-15 |
→ | JournalDate |
2026-01-15
|
Transaction date to MM/DD/YYYY |
Gross Sales |
100.00 |
→ | Credits |
100.00
|
Gross sales credited to revenue |
Fees |
-2.90 |
→ | Debits |
-2.90
|
Processing fees debited to expense (ABS of negative) |
Net Total |
99.30 |
→ | Debits |
99.30
|
Net amount deposited to bank |
Deposit ID |
DEP789012 |
→ | Memo |
DEP789012
|
Payout reference in memo |
Why Automate the Data Transfer?
A2X-Style Accounting
Same methodology used by A2X, Synder, and professional bookkeepers. Proper double-entry accounting.
Negative Fee Handling
Square exports fees as negative values. We convert them to positive expenses automatically.
Tips & Tax Separation
Track tips and sales tax on separate accounts for proper reporting.
Bank-Ready Output
Net deposit amounts match your bank statement exactly. No more reconciliation mysteries.
Multi-Location Support
Location data is preserved in memos for businesses with multiple Square locations.
Browser-Based Privacy
Files process entirely in your browser. Financial data never leaves your computer.
Data Transformation
Square transactions grouped by Deposit ID become balanced journal entries
One row per transaction, grouped by Deposit ID
Date,
Gross Sales,
Fees,
Net Total,
Deposit ID
Double-entry accounting with balanced debits and credits
Common Journal Entry Import Errors
Issues you might encounter when importing Transactions Export data to Journal Entry - and how we solve them
Unbalanced Journal Entry
QuickBooks requires Debits = Credits for each journal entry
Debit: $970, Credit: $1000 (unbalanced)
Debit: $970 + $30, Credit: $1000 (balanced)
We auto-calculate balanced entries: Bank + Fees = Sales
Each deposit creates a balanced entry with fee breakdown
Square Uses Negative Fees
Square exports fees as negative values (e.g., -$3.22)
Fees: -$3.22
Fees Expense (Debit): $3.22
Fee values are converted to positive for expense tracking
Negative fees are automatically converted using ABS()
Account Names Not Found
Import fails if account names don't match your Chart of Accounts
Account: 'Square Sales' (not in your QB)
Account: 'Sales Income' (matches your QB)
Configure your actual account names before converting
Use account settings to match your QB Chart of Accounts
Frequently Asked Questions
Square → Quickbooks Online Data Ecosystem
All available data flows from Square to Quickbooks Online
First Name + Last Name → Name
Company Name → Company
Email Address → Email
Item Name + Variation → Product/Service Name
SKU → SKU
Description → Sales Description
Date → JournalDate
Gross Sales → Credits
Fees → Debits
Date → Date
Net Total → Amount
Event Type + Time → Description
Transaction ID → RefNumber
Date → TxnDate
Total Collected → ItemAmount
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