Ok, so 1 ship had loyalty (CR based) still, as the ship that officer was currently commissioned to had negative loyalty.
I put that one with the officer in it and mothballed it for > 90 days. No change.
I put the others into storage, after I mothballed them for half a day, for > 90 days. No change.
I put the one with loyalty into storage for > 90 days as well. No change.
I did however try the clearrep on 1 ship, and that did work
So, im guessing it's some kind of mod conflict if you can't recreate it (only thing I can think of is to have 1 officer have greater than 10% loyalty still in the mothballed ship, and then not have him change to another ship).
But I'll be ok now that I know how to clearrep. Not an ideal solution, but it IS a solution.
Thank you for your time and consideration, I appreciate it
Edit: these are raw files, unzipped (so much bigger). However I did not realize I overwrote the starsector.zip file before hand until I did so. So there is that. But just in case you want to go through them as well to see what is going on (if anything stands out).
https://www.dropbox.com/s/mxg8h6a6balljgl/starsector.log.1?dl=0and
https://www.dropbox.com/s/ux3apf6icxlotxd/starsector.log?dl=0Edit 2: i did all the testing without loading/saving this time round just FYI.
Edit 3: One thing I just realized it's listing 6 ships as mothballed in the log. I only have 5 in my fleet that im mothballing. Hm.
6960695 [Thread-4] INFO starship_legends.CampaignScript - crig 2221e has 18 days left before its reputation is cleared.
Is the only one I don't know what it is. The rest seem correct after checking with console to see where they are sold.
AHA! It's a salvage rig. I probably sold that while it was still mothballed. That is probably what is causing this whole thing to loop over and over!
Something so minor, I completely forgot I did it. I genuinely dont remember selling it, but if it's listed there as mothballed I probably sold it. I had no officer commissioned to it. Just straight up civie ship.