She is 18, lives in an apartment with her parents, and goes to the local community college. (Different school than mine). She says she is more or less terrified of her father, she hates him, and he is crazy. From what I gather her father is an overprotective disciplinarian type, and they do not have a good relationship. I did not figure the situation out until after I had feelings for her.

I did not learn until later that a lot of the time she hung out with me, specially overnight, that she sneaked out.

The only time I talked with her father is when he some how got my phone number and call wondering where his daughter was. The same night she got a MIC while we were at a house party. I tried to save face over phone and took responsibility, said I was sorry, etc. Interestingly enough, her father mentioned over the phone that they have a lot of personal issues, and he just wants his daughter to be safe. Her father seemed like a reasonable over the phone, but she keeps persisting otherwise. As far as getting his blessing and all that to date his daughter, I do not think it is going to happen.

I told my girl that her father cares about her a lot and try to reason with him, but she won't.

She constantly calls me and wants to be with me, but even I realize that enabling her to disobey her father is not a good idea.

So I am stuck in a tough spot, I want to spend time with her, but I do not want to keep helping her sneak out. Also, I do think her father would like if I am over at their apartment. I have considered the option of just hanging out over there, but my girlfriend will not entertain the idea of getting permission for me to come over. She has asked if she could move in with me, and I do not think that is a great idea either, so I reasoned with her not to.

Idk what to do. As things are now, hanging out with her is just going to cause family turmoil. At the same time, she says she needs me. I am trying to be there for her, and at the same time be responsible and reasonable.

I do not want to leave her. She cares deeply for me. IDK what to do though.

So the father is an ex player and doesn't want his daughter to be "pumped & dumped". He knows all the games of the book and he is trying to protect her. But she feels over protected and she wants some freedom because she is young and doesn't get it that men see her as a cum deposit unless they have feelings for her.
She lives in the lah-lah land.
I was surprised you said at the end that you don't want to leave her because SHE cares too much about you.
It sounds to me that you are not as much into her as she is into you.
If the father is a scary alpha guy ( ie an (ex) gangster/convict etc) and you are not serious about the girl then it's better to leave it and let the girl get over it. She is young and she'll find someone else.
If he is just a normal guy ignore his blessings. She is an adult and we don't live in the medieval times. Keep seeing her and do what you would had done if there were no "daddy issues". Also tell her you don't want to be involved in her relationship with her father. That's her issue to sort out. Your role is to be the boyfriend not the family counsellor.