So we been together for 5 long years, and I've been threw more stuff with her then ever had with my parents. I am 19 I meet her my freshman year and am out of school now. I been there when she was homeless, I let her stay at my house. I been threw everything with her but we broke up. Now she with this guy and she tell me about a lot and she doesn't know if she want to give herself to him. She likes him but he cheated on her within a month buts still wants him.

Now I am in the friend zone. She told me she doesn't really see me as a romantic relationship, more of friends... and she calls me best friend. She doesn't really free comfortable around him but she still comes over and lays in the bed with me, and still get naked around me when she changes.

So put a stop to it! Why let her torture you? In bed with you? Changing her clothes around you? Telling you about her cheating boyfriend?
If you can't be 'just friends,' then say so.
"I can't be just friends, best friend, any kind of friend, because I'm still in love with you. So I have to go cold turkey and have no contact with you at all. You are on your own. You can't use me to fall back on as the 'nice guy' while other guys do you wrong. Goodbye."

So she wants to call this guy her boyfriend yet she expects you to be more or less friends with benefits. She is running the show, its your apartment, your life, put a stop to it. Tell her you need to move on with your life and it doesn't include her.

NOT good you allow and ex to take such disrespectful liberties with you. Put and end to it and tell her she needs a new best friend. Get her out of your life, and keep her out.

You are not her best friend, just her emotional tampon.