are there any differences between a 2001 4.6 ecu and a 2003-2004 cobra ecu.besides extra wires in the harnesses.i looked in my electrical manuals for both 01 and 04 and all the pins are the same just not used.besides the tune what makes them different.i know some guys with the cobra engine swaps are using their stock ecu's.my 01 saleen was supercharged so would it be possible to use the original ecu to control the cobra engine.also did anybody have their ecu's replaced.what steps did they take .did it have to be completly reprogrammed.i have a brand new 2004 cobra ecu from ford that came blank.might be returnning it back if i can use my original one programmed to my vin number.any input greatly apreciated.