My head-canon is that the Aether Foundation is the real evil team and that Team Skull are the misunderstood good guys, possibly corrupted by poor grunts.
This. I get the feeling that Aether Foundation is pretty creepy in fact. Would be an awesome twist!
Love the idea of those UB's (and the design too), but if you can't catch them.. Would be dull. Hoping it isn't lilly, or any other human being because then they really are uncatchable I guess..