If you're getting headers then you'll need to get long tubes. The shorty headers won't really do anything for our trucks. I've heard that shorties are basically the same as our stock ones.
Also as far as I know they won't be able to use the programmer. If I remember right you can only use one programmer per vin.
Another cool mod that people do for the 99-06/7 trucks is to cut the bottom out of your stock intake box, put a nice drop in air filter and just buy a air raid intake tube for it. Most say that it will work just as good as a CAI. I like the look of a CAI, plus I don't have enough room under my hood to go back to my stock intake.
Also as far as I know they won't be able to use the programmer. If I remember right you can only use one programmer per vin.
Another cool mod that people do for the 99-06/7 trucks is to cut the bottom out of your stock intake box, put a nice drop in air filter and just buy a air raid intake tube for it. Most say that it will work just as good as a CAI. I like the look of a CAI, plus I don't have enough room under my hood to go back to my stock intake.