Yes, the upgrade process did indeed remove these options from xorg.conf
because historically they'd been needed but with the new hotplug
functionality they aren't, and actually prevent the new -evdev stuff
from working. Unfortunately it didn't distinguish user-provided config
options, but since Intrepid is already released it is not possible to
fix that any more.
** Changed in: xorg (Ubuntu)
Status: Incomplete => Won't Fix
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xkb options not preserved on intrepid update
https://bugs.launchpad.net/bugs/293547
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