Last year (2011) I completed a usability study of the MnOnline website (http://www.mnscu.edu/online/index.html) for a project in ENG 674 User Experience at Minnesota State University, Mankato. This was my first foray into both UX/Usability research and writing a quantitative report.
The final document is available to view by opening the PDF from the following link:
Report: Usability testing of the MnOnline website
Related:
Report: Webinar Best Practices for Online Learning and Collaboration
ferswriteshoe 
I was actually doing a research about usability testing and will read through your PDF file. I also got some helpful tools from http://biz30.timedoctor.com/split-testing-and-usability-tools/ I hope that we can maximize the results that we can get from our tests.