The motor will fit in, the trans will bolt up, but you will need to get a different hood, I don't think a stock 94-98 hood will close over the 03 Cobra motor. To get back to the technical issues, this is a swap you will want a performance shop to do, as it is very extensive, and costly. You will need the 03 harness and computer. The 97 GT motor is coil pack, and the 03 is coil on plug, there will be more involved than I even know, you should just have a performance shop inform you.