Customer took a discount

I can help you manage this transaction, @appliedcoatings.

Since the payment is deposited with a discount, you can create a credit memo to immediately reduce the customer's current balance. I’ll show you how:

1. Click the + New button and select Credit memo.
2. Choose the customer name.
3. Fill in the necessary information.
4. Select Save and close.

Once done, apply it to the customer’s invoice. Here’s how:

1. Go to the Sales menu, then choose Invoices.
2. Locate the customer’s transaction, then select Receive payment.
3. In the Outstanding Transactions section, make sure that the correct invoice is selected.
4. Ensure also the total is correct after applying the credit memo.
5. Press Save and close.
   

I’ve attached a reference here on how to make deposits in QBO. This makes sure your records match your real-life bank deposits.

If you have additional questions with payments, please don't hesitate to leave a message in the comment section. We'll be happier to help you more. Take care and have a good one!