Well, considering there is a "Truce" now... I am guessing that if Agito is actually after the Zoacrystals of the rogue Zoalords... It might be to bait Apollyon.
His ego and plans took a big hit after Sho defeated him, so I doubt him being there has anything to do with a power grab for himself.
Essentially I figure that while Sho and Aptom hunted for Guyot, Agito and his forces hunted the rogue Zoalords. Especially since it's not hard to believe that Agito couldn't take 2 Zoalords, when he took on 3 and was winning fairly easily.
It is all guess work though... I want to believe that Agito has changed. I didn't really like his one sided greedy agenda before.