For REAL borg, you'll have to mod some new components for them.
(since boarding parties don't work on troops)
-borg troops have Allegiance subverters! Uh, oh! The borg are coming!
-Organic armor type regeneration for
the entire ship 
That would make for some really nasty, scary borg. Also, make sure they use big, boxy Baseships!!! hehehe.
-Automatic declaration of WAR to every race.
I would really enjoy a borg mod where they get an organic-regenerating copy of every component in the game. With double hitpoints! The entire quadrant would have to join together to stop their incursions!
They would have to be AI'd to declare war instantly, every time. They should call for surrender during every encounter, then kick your ***
I would really like to see a technologically DANGEROUS borg AI. Something that you and some friends could gang up (militarily) against and lose most battles to.