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Good day, @RFBSDot,

Thanks for coming back to us with the detailed information of what you want to do in QuickBooks.

When you want to record invoices that are charged with Paypal fees, you just create the invoice like you normally do. Then deposit it in the Undeposited Funds account so we can deduct the fees.

Here's how:

1. On the invoice, click the Receive Payment button.
2. Select the correct invoice on the Receive Payment screen.
3. In the Deposit to field, choose Undeposited Funds.
4. Click Save and close. (See screenshot attached)

Enter a Bank Deposit for the fee to relieve the balance from Undeposited Funds account to bank account. (See screenshot)

1. Click the QuickBooks Plus (+) icon.
2. Select Bank Deposit.
3. Mark the invoice payment you received previously from the Select the payments included in this deposit section.
4. Expand the Add funds to this deposit section to add a new line item.
5. In the Received From column, enter the vendor who charged the fees.
6. In the Account column, add an expense account for the fee.
7. In the Amount field, enter a negative fee amount.
8. Make sure the deposit matches the net bank deposit amount.
9. Click Save and close.

After depositing the funds in your bank, you should be able to match it to the transaction in the Banking page. See this link to learn more about matching bank transactions: Categorise and match online bank transactions in QuickBooks Online

If you need anything else, please let me know in the comment below. I'll be right here to help with your sales transactions. Have a good one!