I've got a Thinkpad W510 laptop running Linux Mint 13 (I figured I'd be safe asking this question since LM is an Ubuntu derivative, and in any case I believe my problem is distro-agnostic). I have two external monitors that I use at home, with the third laptop monitor turned off (it's on a shelf above my main desk, so the picture below accuracy describes my physical setup):
Now, whenever I turn on my computer, come back from suspend, etc; the "off" monitor is hidden behind everything:
Typically I would say "eh, who cares if nvidia-settings doesn't keep the monitor settings properly" - the laptop monitor is off! Things display correctly!
My problem is I'm using Redshift to change my monitors' color temperature based on time of day. When the screens get into the configuration shown in the 2nd screen shot, it screws up the "redshift"ing on the left monitor. Basically, the left monitor does not change color and yet the right one does. I typically just fix this by popping into nvidia-settings and changing the display configuration, but we all know that if you've got do something menial
n number of times, that's probably
n-1 too many times.