I suspect it's the number of forums that you have creating the problem, coupled with the post tracking but in 6.5. Version 6.5.1 will be released as beta into the Member Area this week. Our testing has shown this to be fixed, but we could really use some feedback from sites such as yours where the bug has presented itself.
Normally I would never suggest running the beta in a production environment, but in this case I think it may help you and your users.