Hey, just so you all know.
I've finally gotten a hold of 2008-2013 wiring diagrams and the 2008-2013 service manual (LIT-11616-21-68). The Service Manual is not in a good digital format, but I do have the $110 physical dead tree version (Yikes they sure are proud of them)... so it'll be a while before I get the service manual to Paul Milner, if ever.
BUT, I did manage to get a very good high res wiring diagram and second page with descriptions and color codes for the 2008-2013. Nice purty colors.
This also includes some other formats and some "custom" things done by a guy named "Tommy" for minimalistic wiring.
Yamaha Roadstar 1999-2013 Wiring
Hint: They aren't hosted on RSC.
Edit: June 13th, 2013.
All webpages are back and working.