Assuming we are talking the real Thor, at his normal level of power:
I think Thor is taken aback by BA's first blow kill shot. Though it doesnt kill him, he is staggered. After a quick moment, Thor realizes what he is dealing with and takes off the restraints he normally puts on himself. Even giving that Thor's lightning doesnt affect BA much, Thor wins a brutal slugfest that puts BA down. BA has speed advantage, but Thor can compensate in reaction time. BA can win, but I say Thor wins 7 out of 10.
If we are talking Jane, then BA 10 out of 10. Not just because I hate Jane, but because he complete lack of warrior mentality and skill. BA kills her.
BA as powerful as Superman, less vulnerable to magic, and goes for the kill....