Turns out "The Advent Rebels, who suspect that their collective consciousness has been corrupted, have the ability to resurrect destroyed enemy ships as their own, and their Titan can consume other friendly ships to keep itself alive."

http://au.pc.gamespy.com/pc/sins-of-a-solar-empire-rebellion/1219036p1.html

The whole thing screams Zombie Invasion, how would you feel attacking an enemy strong hold, getting your ass kicked and the haveing those same ships come back and get you

I don't like it because my fleets are usually very organized.  All very calculated.  And if I capture another player's ships, it messes everything up.  And then there is multiplayer... in multiplayer, my carefully planned fleet goes to hell.