Yeah, that's what I was thinking, too. Either they witnessed it, or knew he did it, so he took them. I'm wrong about cases on here a lot, though, so there's that. I'd like to think that if he wanted to harm them, he would've done so instead of abducting them, but we've seen that not be the case many times.
Best case scenario in my mind: He was asked to leave, got in a fight with Tonya, and intentionally or accidentally killed her. Then, not wanting to spend his life in prison, he took the girls so he could avoid arrest. Maybe he took them to hide out somewhere for awhile until he can leave them somewhere and go on his own, or kill himself when/if he gets cornered.
Also, just from viewing her FB, Tonya seemed to be a pretty progressive, open minded person. I'm not sure what some would call it, so I'll put it this way: if she lived where I do, she'd likely be considered odd, but she fits in just fine in Austin. Being that way myself, those types are often more open to someone that may seem a little off, like this guy. It's totally possible that he didn't seem like a creep in person, maybe just a bit different. I don't think she'd let him move in with her daughters if she thought he was the dirtbag he actually is. I was under the impression that they weren't roomates for very long, so maybe once she realized he was actually a creep and/or found about his past, she wanted him out. She strikes me as the type that would make her feelings known and not back down at all.