nnnn

but hes cute (づ￣ ³￣)づ

Exactly.

I don't think so. Just ignorant. Maya said that he left, not that he was kicked out. The father also handled the situation with Nemu very politely. I don't actually think he's a bad person. Just that he has bad views.

So Maya left, and like a good dad he is he went, "If you step foot out of this door, I'm not going to pay for your college fees anymore and oh I've frozen the credit cards too!"
and Maya went "Fine!" and left anyway.

Also what kind of threat did he make that Akira was afraid to shelter Maya, but instead in a round about way made Naoya shelter him?

He just said that to Nemugasa to ease his mind. Maya was kicked out. Read this one again:
http://www.mangago.me/read-manga/hidoku_shinaide/tr/a8ee981e1d9d2dfeaa95276db095c758_chapter-1/pg-12/

Ah, didn't notice that.

Well, not really. You did notice the byplay between him and Maya after Nemugasa left, right? The father seems concerned that his son is bullying Nemu more than anything. So....