Why does mutter is changing monitor layout from that set by xorg.conf?

Issue

• mutter reconfigures the display layout from the original layout provided by the system's /etc/X11/xorg.conf.
• Quad display configuration loses its display placement in RHEL7.2
• System is configured with a specific monitor layout in xorg.conf with 4 displays using Nvidia's metamodes. If you just start the Xorg process the monitor layout is correct. In this particular case monitor 1+3 are overlapped and 2+4 are overlapped.

• When gnome-shell is started and the gnome-settings-daemon runs, it changes the orientation around (lining up the displays). This occurs on a fresh installation where no user has ever logged in, so the login screen layout is not correct.

• Creating a monitors.xml file and placing it in /var/lib/gdm/.config, corrects the login screen, but once a user logs in the layout is once again changed. Where can I set a default layout or how can I get gnome-settings-daemon xrandr to stop changing the layout defined in xorg.conf? I've tried placing a monitors.xml file in /etc/gnome-settings-daemon/xrandr but that had no affect.

• Tried changing the default to /etc/gnome-settings-daemon/monitors.xml and placing the file there but that didn't help. If the same
  monitors.xml file is copied to ~/.config/monitors.xml then the system layout is correct, but that's not acceptable solution for systems with multiple users.