I got the console open by changing the button on the options menu, I set it for F9 and now everything rolls out well, except the game forgetting the sens after restart, but it is fast to reset back.
I can find a folder named "Natural Selection 2" on /home/user/.config, but no config files there.
And the key next to 1 wont work, didn't work on quake and doesn't work in this.