Step 3: Configure the sync settings for Sales, Expense, Fees, Items & Payout (How to?).
Step 4: Record (Sync) the transactions from Square to QuickBooks Online (How to?).
While providing the settings, you need to select the same bank account ("Square Bank Account" or created Bank Account) for Sales, Expense, Fees, Items & Payout.
Configure Square Sales settings with your Square Bank Account
Configure Square Fees settings with your Square Bank Account
Configure Square Expenses settings with your Square Bank Account
Configure Square Payout settings with your transfer sales account
Step 3: QuickBooks Online Bank Review
Step 1: Navigate to the Banking Section in QuickBooks Online, you could see that the TRANSFER transactions of "Square Bank Account" is matched against your deposits. These TRANSFER transactions won't be created if you have not enabled Payout processing in PayTraQer.
Step 2: Click the "Match" link to accept the transactions.
You can also create TRANSFER transactions directly in the Bank Review screen if it is not available.
Step 2: Provide a statement balance amount and statement date.
Step 3: Start the Reconciliation Process.
QuickBooks Online automatically matches the transfers and deposits and marks the transactions as reconciled. Now QuickBooks Online Square sales (Invoices, Sales Receipts) and Square Expenses (Fees, Expenses) are properly matched with your checking account.