Sorry about that. I didn't mean to annoy you, and I understand why any information you can get will be helpful trouble shooting it. On to some good news though. I think I figured out most of my problem. The first problem was that for some reason my Modular Manager patch wasn't changing any values. Which is probably some typo on my part. So I edited the FTLDriveLarge.cfg file directly. I reloaded KSP and now the new value was showing up when I right clicked on the part in VAB. So I loaded up my test ship and boom again. That's when it dawned on me that the old value was probably saved with the ship save. So I swapped out the FTL drive, and it works perfectly. Now time to find my typo in my MM patch.
I can still send you a log file if you want, but this was purely user error on my part.