You can manually record payments for any Invoice. First step is to select the Invoice for which you want to record the payment.
From the left-hand navigation menu select the Invoice menu item and then click Search Invoices sub menu.
Next search for the invoices you want to record the payment for. You can select the 'Due' status to search for all the Invoices that are unpaid.
Click on the 3 elipses icon ( ) to open menu and select record the payment.
Enter the details to record the payment.
Click on Add Payment to record the payment for the Invoice.