Oh dang, sorry to hear about the bugs. It has not been updated in almost 3 years so I guess that's expected. Do you remember when the crashes happened and what you were doing when they did?
No apology needed! I was able to finish the game, and I enjoyed it immensely.
I posted some more detail in the RC5 release thread:
Playing The Antagonist using 3.7.2(RC5) and 3.6.12, I keep crashing to desktop ("FSO has stopped working" dialog box) while fighting with the Granite (Osmund's ship), both in and out of subspace. It happens at various points, and I cannot determine what triggers it.
I posted a few logs, too, but I don't know if anyone found anything, or if they were even useful.

Reading through older posts, it looked like others had had similar issues in the past.
Thanks again for an enjoyable experience! This was one of the first mods I have played - I had been sticking with the FS2 main campaign, and Diaspora, for years.