Torque Loss

Step 1.) Post ALL the engine mods and transmission information. The better description you provide, the better chance of you getting the correct information you need to resolve your problem.
If you used aftermarket parts, post the names and model numbers. You may have a mismatched combination which would contribute to your problem.

2.) Dump codes sticky

Look at the top of the 5.0 Tech forum where the sticky threads are posted. One of them is how to dump the computer codes. Codes may be present even if the CEL (Check Engine Light) isn’t on. You don’t need a code reader or scanner – all you need is a paper clip, or if your lady friend has a hair pin, that will do the job.
I highly suggest that you read it and follow the instructions to dump the codes. http://www.stangnet.com/mustang-forums/threads/how-to-pull-codes-from-eec4.889006/