I'm not saying there isn't a problem. I'm just saying the problem can be perceived differently even by people who don't understand what's going on under-the-covers.
If people generally spend most of their time in IE/Chrome/Firefox,Word,Excel,PowerPoint... and they all look great and Skype and iTunes look bad, I'd expect people to complain about Skype and iTunes.
If, on the other hand, people spend a lot of their time in applications that look bad I'd expect them to have a broader complaint (which may or may not be about Windows since, by assumption, we are talking about people who don't understand what's going on under-the-covers).