It actually feels more NobleDark to me. Even in the early game there's hints here and there that things may be shit, but there are still some helpful people.
As for capturing Meteor members, it's not like you have cuffs and can sit on them waiting for a cop that will never come - you have things to do and a lot of more them to stop generally anytime you encounter Team Meteor. Granted, it is a bit of ludonarrative dissonance with some of your defeats sending you to a Center, but that's just how it has to work - the game doesn't punish you losing for those sorts of fights, at least.
People have become trapped in so-called psychiatric facilities and orphanages in real life, and while it's supposed to be aggravating and blood-boiling, I wouldn't call it GrimDerp or edgy. He is legally the guardian of them because he runs the orphanage, and what he is doing - administrating electroshock therapy without consent - presumably isn't illegal because he's also their doctor. Orderlies admit that they don't like it, and Lapis Ward residents complain about the screams, but they don't actually bring themselves to do anything about it.
It would be spoilers to tell you anything more, but if you really insist: