OK i have a 01 Cobra with about 45,000 miles and i do still have an extended warantee 5 yrs or 100,000 miles from now. I just got the car about a month ago and now that it is starting to get cold im hearing this noise. I only hear it when the car has been sitting for awhile and the engine is cold. Its like a rattling or taping kind of noise and it only happens for like 2 sec. , when u start it up. But say u only let it run for a min or two and drive it and u bring the rpm's up past 2500 it will start making the sound again. But if the car is fully warmed up to operating temp. it will not make the sound anymore. It sounds like its coming from the engine compartment. The only mods to this car are a b&m ripper shifter and a flowmaster catback. And i also have one more question when the car is warmed up to operating temp. but it is not driven and the trans isint warmed up. For like the few couple of shifts from 1st to 2nd it grinds and goes in hard, unless i shift really slow and then it wont do it. I have ideas on what it could be but this is the first ford i have ever owned and im not too fimiliar with these 4.6 cobra motors. Any help is greatly appreciated i really wanna get this taken care of as soon as i can.