Credit card payments don't go directly to the bank, they go through a card processor (QB, Square, Stripe, Paypal, etc.) even if only for a split second. Most are hours or overnight or whatever, but it is technically UDF until that processing finishes, at which time there should be a "Deposit" type transaction showing the money leaving UDF and going into your bank account (less any fees). I printed out the "Transaction List by Date" report under the last section of reports, and it helped me grasp the process much better. 

HOWEVER, I'm still here for a reason. My actual funds are doing what they're supposed to, but the books are not. The amounts are added to Undeposited Funds at the payment transaction, but then again in a "Sales Receipt" transaction type. At the deposit stage the amount is subtracted from Undeposited Funds and split between the bank account and the service fees, but since it was added twice, one of those amounts is still in UDF and never goes away. It essentially doubles my assets on my balance sheet with a large account that I don't have. 

Every "Sales Receipt" transaction type is adding an amount to the Undeposited Funds account and the Services account, and neither of those are accounted for on the left side of the ledger. While the payment and deposit types balance each other for UDF, the Sales Receipt is a standalone and never gets balanced. As if all that isn't fun enough, my Services revenue is triple what it should be because Invoice, Sales Receipt, and Deposit all add the same amount to it, so it gets 3 credits for every sale.

As much as I've dug into this to find out what is happening, I still don't know why or how to fix it.