In your talk with your W last night did she give you any indication that she wanted to try and reconcile? Or is this just a desperate woman who messed up and needs a place to stay for a bit?
All I'm saying is, don't get ahead of yourself with rules, regulations and expectations until you figure out what her intentions are. I would have another set of boundaries if she's just staying short term, like paying her own way.
From what you write of her actions it sounds like she is trying to manipulate you into letting her crash for a while. I'm not saying that it's wrong to want to help her out, but red flags go up when she is kissing and flirting with you now when she needs something from you.
How did she treat you while you were together when she wanted something? Was she manipulative then?
You've come so far. Just protect your heart, You're a stronger, wiser man, now. I know you'll figure this out and do what's best for you and your D.