There's one fundamental problem about focusing on a character that is perfect... Where is the conflict?
Gainax has an interesting track record when it comes to adaptations, and that hit-or-miss quality is here too. Unlike Dantalian though (the last adaptation of theirs I've seen), Medaka is more visually obviously a Gainax work, with the bold lines, over the top expressions, and even (unfortunately) the animation mistakes. There's even a Kamina lookalike, which I'm assuming is intentional knowing this studio. However, despite the visuals, Medaka Box is "meh" at the moment. Like I said above, where's the conflict? The majority of the episode was spent establishing how Medaka can do anything she wants, logical or not, so what's the point in watching when it's been predetermined that she will succeed in whatever this show might throw at her? It feels like this show wants to be a parody of the "student council/club" subgenre, but if that's the case, it's going to have to get a lot more ridiculous and over the top to pull that off. If anyone can do that, it's Gainax, so I'm giving this show the benefit of the doubt for now and will see where it goes after a few episodes.
Images from Crunchyroll.com.