in game I see version: "v0.3.13 (Rev:???)"
The Rev:??? is a problem with the CMake code that sets that number from the SVN version. Someone suggested a modification, but I don't use CMake, so haven't tested it. It doesn't indicate anything wrong with the rest of the build.
Similalry, the v0.3.13 and not v0.3.14 is because a version number somewhere in the CMake stuff wasn't updated recently. It doesn't indicate anything else would be wrong.
As for the unregistered class issues, they've been coming and going recently, and I don't use Linux myself so can't easily test. It's possible something since the v0.3.14 release caused this problem, so you might try building SVN revision 3571 instead of 3599...