You can use the 87mm or 90mm throttle bodies, intakes supposedly flow better too. I did notice much better throttle response after the install and retune.
The rails that fit the TBSS intake are returnless and don't have a regulator built in. You can use the vette filter, modify them, or use aftermarket rails.
04+ with the returnless rails you don't have to do any of that, it will plug right in.