Some versions of Elita use their Female Autobots to aid the Quintessons instead, as part of a grand scheme that may never be revealed.
In other timelines, she is a new Autobot recruit of unknown origin, trained in mastery of the martial arts. She is not a leader, but a skilled recon specialist, and the first Transformer of her gender. She continues to fight a war that by all appearances has ended, joining a special Autobot group that tasks itself with finding the last dregs of the Decepticon race.