Hello there, @tu_ultimate. This isn't the experience we want you to experience. Allow me to point you in the correct direction to get your needed support.
Sales receipts and deposits have similar net amounts and fees. The only difference is that the item details won't be included when you make a deposit.
To check why you have fees deducted twice when using a deposit, I recommend contacting our customer support team since we're the connector developer to PayPal. Here's how:
To reach a live representative, here's how:
Alternatively, you can check out this article containing our support hours to avoid inconvenience and a phone number you can call: QuickBooks Online Support.
Once you've sorted this out, please reconcile your accounts to keep them up-to-date and accurate.
Let us know if you need further assistance with your PayPal transactions. We're here to help. Take care.