One of the organizations is Greenbush Southeast Kansas Education Service Center, mentioned here:
"We have no bad software or installs or anything that would indicate a need to ban people from viewing our site," wrote Matt Blatchley, who works for the Greenbush Southeast Kansas Education Service Center , in a posting on Friday to Google Groups.

Link:
http://www.infoworld.com/archives/emailPrint.jsp?R=printThis&A=/article/07/01/11/HNgooglemalwarealertsirk_1.html

An opinion of Stopbadware.org included too.

Google begs to differ:
http://www.mattcutts.com/blog/info-about-malware-warnings-and-how-to-appeal-them/

I think it's pretty easy to make an appeal :)

<<
- Click on the “StopBadware.org” link on the interstitial that Google shows.
- On the resulting page is the phrase “If you are the administrator of the website that was reported to us and would like to speak with us, please see our contact page.” Click on that contact link to get to http://www.stopbadware.org/home/contact_general to read about how to email and lodge an appeal with StopBadware.>>

My lame attempt at injecting a pseudo-authoritative message into the malware interstitial:

http://www.google.com/interstitial?url=http://greenbush.org/?%96...a...site...which...Google...thinks...SUCKS...btw!!!%96...