In QuickBooks Desktop, select the Customers menu and then Credit Memos/Refunds. In the Customer: Job dropdown, select the customer you need to refund. Enter the products and services you need to refund. When you're done, select Save & Close. Log in to the “QuickBooks Payments” from your “QuickBooks Desktop” account. Go to the “Customers” menu. Then, click on the “Credit Memos/Refunds” option.