Funny, this doesn't bother me at all in the grand scheme of things. The average Clone Trooper was genetically bred to be nameless, faceless, and obedient, but that didn't stop them from making rational decisions in combat.
It bothers me more that the Imperial collapse was smashed into a year's timeframe. I mean, I understand the desire to "clear the slate" so to speak, and I agree that as a whole "random Imperial splinter faction X that has McGuffin Y" was boring and unimaginative as far as stories go (this why the First Order is boring and unimaginative). But this is a vast governmental machine that we have seen has capable leaders who are not named Palpatine or Vader. At least a 5 year war would make sense and still leave a huge timeframe open for new content.