I hadn't really thought to grade the scenes. I think the lunch scene is the best, but I'd say the library scene is about on par with the classroom scene.
As for Maya and Josy as friends, I don't think it's quite as bad as you say. They do still wish the MC a happy birthday on Rooster and by text message if they are just friends. And since it's implied in the trio route that they will be celebrating it later, it's possible they will do something later as friends, too. Also, Josy will still kick Tommy if the MC didn't fight him (we just don't get the reveal about it without the phone call).
I think that's a decent amount of friendship on display. I'd have preferred more, but we also have to consider that some people hate the two and want as little to do with them as possible.