QB System Admin is not posting credit card payments properly. Audit trail shows it should be 2 steps and SA is posting 1.

For a 3 week period of time in March (the 4th-25th) we have credit card payments received where the Invoice status says “Paid” but was never updated to “Deposited” when the deposit was received. Looking under Sales (from the menu on the left) > Invoices I can see these invoices with the status of “Paid”. When I click over to Sales>Deposits I can see that the funds for those invoices were deposited but the invoice status was not updated. How do I update the status to “Deposited”? These funds are not in Undeposited Funds for me to create a deposit. In the past we have never had to match, post or record an entry to do any of this. The status updated and the deposit was posted by QuickBooks. Our problem appears to be a software or download glitch. When I reviewed previous invoice paid via credit card the Audit History shows 2 steps, a Payment and a Deposit both “Added by System Administration”. However, for the 2 weeks in question the credit card invoices only show the 1st. step. Please advise how best to fix this.