That works as expected here. One thing to be aware of, if you're using the version increment option and the project doesn't get built because it's already up-to-date, then the version won't be incremented (this is by design; you can override this behavior by checking the 'force' option on the Project/Solution tab of the Make VS.NET action).
If that's not it, send the following to
support@kinook.com:
1) The .sln file + any constituent .vcproj files being built
2) The .bld file
3) The info from Help | About | Install Info