When you break it down and look at the psychology and try (keyword "try") to examine the dimensions of the female mind, you could probably come up with a few theories to explain this idea we're talking about.
But I think that when it comes down to it, some women (keyword "some") probably simply make the assumption that if a guy isn't being the arrogant/cocky type then he has no confidence, which may lead to thinking he does not having the equipment to be confident about.
Often the "nice guy" type we are referring to is the guy who will be respectful to women, and listen to them, which can easily be seen by "some" as him "putting up with her shit". But when you think about it, having respect and listening skills may just mean he is attentive and tuned in to her needs. Which when you think about it, in the bedroom is probably one of the strongest assets to a great lover.
So its funny because "some" of these women are probably ignoring the "nice guys" because they may assume he isn't packin', but if we're using the theory of logic I just proposed, that same guy she just blew off was probably the best fuck she could have asked for.
Thats my $0.02