Hello,
I seem to have a similar problem. It crashes on me on the Lambda station, either when I initially talk to Catherine (always when she notices the omnitool) or shortly before.
Im running ArchLinux (64 bit, kernel 3.14 lts) and had to apply the SDL library hack to get the game working. I obtained some backtraces through gdb, they seem to be similar between each crash:
https://gist.github.com/sahib/f25a2684f2cbc1c6d5d1
I got the game from GOG if that matters.
If the devs need the full coredump, I could provide it too.