Actually as I was originally thinking about that topic as a 3-5 mission arc on my own, what I was going to do was have it all come down to the fed president making these moves and turning the federation into 1940s Germany subtly so no one would notice. The twist being he'd turn out to just be a power hungry guy, no alien infiltrators or anything. But I really don't think i'll ever get to that concept, too many unfinished missions as it is, which is why i put forward the idea here. The X race from "Conspiracy" is just one possible place you could take the plot.