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Welcome back to the QuickBooks Community, roleautopartstra. Let’s perform some troubleshooting steps to remove the due message in QuickBooks Online.
If the payment has been made through a bank deposit, this entry won't automatically link to the existing invoice in QBO. This could be the reason a due still appears on your end. I suggest linking the two transactions to remove the message and show the invoice as paid.
To start with, you have to find the deposit entry in your bank register. This is to ensure that the transaction has the customer associated with it. Please follow the steps below.
- Click the Gear icon ⚙ and select Chart of accounts.
- Find the account you deposited the payment to and select Account history.
- Find and select the correct deposit. Then select Edit.
- In the Add funds to this deposit section, find the deposit.
- Select the Received From ▼ drop-down, and select the customer the deposit was from.
- Select the Account ▼ drop-down. Then select Accounts Receivable.
- Select Save and Close.
After that, you can now apply the deposit as an invoice payment so the entry won't no longer show as due. You may refer to this article to see the steps: Link a bank deposit to an invoice in QuickBooks Online.
If the issue persists, make sure that the payment is correctly applied to the appropriate invoice. To verify this, you have to go to the All sales section and locate the payment, then double-check the transaction allocated with it. I attached screenshots below for visual reference.
Lastly, refer to this article if you need help in running reports in QBO that will tell you about different aspects of your business: Run reports in QuickBooks Online.
I'm all ears if you have other invoices concerns in QBO. Please don't hesitate to drop a comment below, and I'll gladly help. Take care, and I wish you continued success, roleautopartstr.