Alright. Reporting back.
For anyone else with the problem of HM having an Influence:Failure, I have a solution.
Download KSE, if you don't have it already.
Then go manually change your influence with HM down to 68.
I got this by trial and error, so there may be other entries that work, but that one is confirmed. If anyone else who has this issue could try specifically using 68, to confirm its not just my game, that would be helpful. I know a lot of people came up in search with this problem.
And on the HK problem, once I deleted the file and got back to the Ebon Hawk, a cutscene initiated.
Now I just have to make sure the factory itself works okay. Will update once more