Hello there, @kelper62.
Allow me to share some information regarding payment processing fees in QuickBooks Merchant Services.
First off, when a customer pays through a credit card or ACH, the fee should normally be deducted on your end. However, if you want your customer to be the one paying for the fee, let's add the fee to the bank deposit window.
To do this, please follow the steps below:
- Go to the Banking menu and select Make Deposits.
- In the Payments to Deposit window, select the payment you want to deposit, then select OK.
- From the Make Deposits window, select the account you want to put the deposit into from the Deposit to dropdown.
- Add the fee on the next line as a negative amount.
- Enter the details needed, then tap Save & Close.
When done, you can now match it on your bank feed.
Additionally, here's an article that'll guide you in reconciling your accounts so they match your bank and credit card statements: Reconcile an account in QuickBooks Desktop.
I'll be around in case you need further assistance with regard to managing payments. Simply leave a comment below, and I'll get back to you. Keep safe.
