Thanks for joining this conversation, @zahatres. let me chime in to add more information about reconciling in transactions in QuickBooks Online.
Though the invoice transactions are split, as soon as you matched them with the one big deposits in the bank feeds, it will then be added to QuickBooks as one and should not be duplicated or double the funds.
When you reconcile, you'll need to get your bank statement, then open the reconciliation for that period. Simply select the two invoices as soon as you see the one large amount in your bank statement to crossmatch the transaction.
To know more about how to reconcile accounts in QuickBooks Online, here are some helpful articles you can check:
- How to Reconcile an account in QuickBooks Online
- How to resolve reconciliation differences
- Troubleshoot reconcile when the opening balance is correct
Let me know if you require additional help. We're always to help you more. Stay safe.