HOWEVER, they are not being added to the "total finance charge" calculation for the month. We had auditors here yesterday and mentioned that this needs to be done.
Other than the obvious fact that it could be confusing to customers (the total FC does match the itemized FC, which I agree could be an issue), I'd be interested to see why your auditors are saying this. It's been awhile since I researched this, but I remember the regulation only requiring that the fees be itemized and it did not say that they needed to be totaled.
The auditors mentioned that we maybe can just have the customer write a check for the fees and then draw off the HELOC to pay themselves back.
Personally, I think this is bad advice as you would be intentionally circumventing the regulation requirements. When I was an auditor, we made sure banks were NOT doing this for that very reason.
On a positive note, I heard that Jack Henry is in the process of, or already has, created a fix for this. We don't use JH, but if you do I'd check into it!