Yes, in the original post I stated I got codes 33, 44, and 94 during engine running test.This is ALWAYS the first step in troubleshooting not so obvious engine problems....
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/
Did you get the engine running codes?