Hello, I recently sent this same message to the support guys:
Hello, I have a problem with FontDoctor. I have a lot of fonts to organize. When I use FontDoctor, I can diagnose problems and resolve them just fine. When I go to organize the fonts, the program crashes whenever it starts building the folders during the last steps. It seems to crash at the same time. I have tried twice. It seems to get somewhere around the "6" folder (organized alphabetically) and then crashes.
Thanks
I have attached an error report made by apple.
Here is the link to the diagnosis report from fontdoctor:
http://www.mediafire.com/?jomjznfx2tx