Hey Ryan thanks for helping me out on this one, I got a few most questions though.

So I've found a few simple solves.

1) Add attributes to the products you want to add the fee's to.
Problems with this method: Repetitive / It taxes the fee at checkout.

2) Create different classes for each of my categories instead of vocabulary lists. Then add tax rules for the fees and click witch one goes with the corresponding classes / fees.

Problems: I Didn't do this from the start and now all my product types are in categories terms. 250+ Products I might have to redo Second problem: I have a custom node-product.tpl.php and it doesn't copy over when I make a new class.

So now I have some questions.

First Question: If I was going to create new classes and I wanted to keep my customized node-product.tpl.php would I have to create another node-"classname".tpl.php?

Second Question: Is there a way I can avoid redoing my whole site by being able to tax certain taxonomy terms?

If anyone has ideas please let me know! - Thanks Justin