It works!!!! And the framerate is good!!!! And I haven't overclocked my N900!

Not sure why it works now, but what I did was to place the pk3 files in /home/user/baseq3 and NOT /home/user/.q3a/baseq3.
I also did something else. After a look at crashlog.txt, I noticed it was also complaining about not being able to load default.cfg, so I made a copy of q3config.cfg and renamed it to default.cfg.

Hope this will help the others to get it working too!