[aggieguy13]

all depends on your dealer.
mine said dyno tune. warrantys out. no questions asked
handtune...... revert it to stock when i bring it in then put my tune back on in the bay if i want to, as long as its not there when they have possession.
headers- dont effect. tuning them however with the dyno/hand tuner. is what does.

anything that the engine is in any way taken apart. by by warranty. if they can connect it to the problem they will. most likely.

intake, plugs, wires, exhaust should be 100% fine. ported throttle body, i would assume would be fine. partially because they would never even notice as it looks the same

i would say the BEST thing to make your car faster, find a local professional driving course, and take it for giggles. you might learn something new. even if you are a skilled driver. (not saying your not, obviously i dont know your driving skill)