lbE, keep in mind this is a small part of a much larger study of many many campus factors at many many schools. LGBT life was not the sole focus. With that in mind, their methods were solid.
Adding resources and such artificially adds value based on what those resources SHOULD do, not what they actually do. Who cares of a college has an LGBT center if it doesn't encourage students to report that the campus is friendly to the LGBT community?
Let's face it. If people had answered that one simple question with positive responses, you'd have no criticism of the methods at all and the Wake LGBT center would have a copy of the article printed out on their door saying "Wake Forest ranked most friendly school to LGBT community".