You're best bet is to look at the 2 functions func_calculate_single and func_calculate and see if its doing the tax calculation before the discount
In the version i have it does the discount before the taxes (or atleast the comments say so)
I don't have access to the version of cart that you are using, but if you have trouble, you can e-mail me your func.php and i can take a look.
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Mod King
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