Here is how to save alsamixer settings permanently, so that you don't need to restore them after reboot manually:

1. Open Terminal and run alsamixer. Change your settings and exit.
2. Save alsamixer settings by running
   
   Code:

   sudo alsactl store 0

3. Go to System -> preferences -> Startup applications and the following
   
   Code:

   sudo alsactl restore

   This will restore alsamixer settings after reboot.

I had problems with alsamixer 1.0.23 not saving Line Jack and Mic Jack settings in Ubuntu Maverick. After rebooting my computer I had to change the settings again. The above mentioned trick didn't help me to solve the problem. Do you have a better solution?