I just checked mine, and the new specs are showing up once I change the character's career to Hired Gun. Also checked the Data folder (updated as of OggDude's last release), and the specs are listed. I'd suggest checking the Specializations sub-folder in your own Data folder and see if they're listed.
If they are, check the Hired Gun career in the DataEditor to see of those specs are connected to the Hired Gun. It could be that if you opted not to replace the Hired Gun career from an older version with the newest version, that's why the specs aren't showing up.
Weird. The data was there, all of that; but they weren't linked. Thanks! Fixed to force the link. Really weird.