If you're talking about not being able to auto-download custom maps, I actually solved that problem the other day - after searching in vain for days.
The solution was to open up ~/.q3a/q3ut4/q3config.cfg. Then find the line:
seta cl_autodownload "1"
This was already set for me, but the line under it read:
seta cl_allowdownload "0"
I don't know why this was the default, but changing that 0 to a 1 fixed the problem. I can now autodownload custom maps from the servers.
Hope that helps.