Thank you for visiting the QuickBooks Community, Janinelc. Let me provide further details on how processing fees work with your sales transactions in QuickBooks.
Each time you process a transaction, QuickBooks Payments charges a fee. This will automatically be deducted from the bank that is connected to your payment account. With this, yes, you'll still get charged even if you already included it on the invoice. The purpose of the fee that was added to the entry is to offset the processing fee that you incur.
You can read this article for more information on the various processing rates while processing customer payments: Keep more of what you make with competitive payment rates.
In case you need details on how QuickBooks Payments deposits work in QuickBooks Online, you can refer to this article: Common questions about payments deposits in QuickBooks Online.
You can always post here if you still have concerns about processing fees in QuickBooks or other questions related to the program. I'm here to help anytime, Janinelc. Take care and stay safe always.
