I no longer see this bug on Ubuntu 13.10, so it was fixed at some point.
Marking as fix released.

** Changed in: xserver-xorg-input-evdev (Ubuntu)
       Status: Confirmed => Fix Released

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https://bugs.launchpad.net/bugs/554839

Title:
  Using multimedia/function keys clears xset repeat settings

Status in “xserver-xorg-input-evdev” package in Ubuntu:
  Fix Released

Bug description:
  Binary package hint: xorg

  I swap my caps lock and backspace keys using xmodmap, and I use xset to 
change the repeat settings accordingly.
  This all worked fine in Ubuntu 9.10.

  In 10.04 beta 1, the repeat settings for caps lock and backspace are
  lost whenever I use the multimedia keys or brightness keys on my
  keyboard. Then I use xset again and they're fine until I touch one of
  those keys again.

  To repeat:
  1) run
  xset -r 22
  xset r 66
  2) observe changed repeat settings in caps lock and backspace keys
  3) press multimedia buttons
  4) observe repeat settings have reverted

  My laptop is a Dell Inspiron 9400.

  ProblemType: Bug
  DistroRelease: Ubuntu 10.04
  Package: xorg 1:7.5+3ubuntu1
  ProcVersionSignature: Ubuntu 2.6.32-19.28-generic-pae 2.6.32.10+drm33.1
  Uname: Linux 2.6.32-19-generic-pae i686
  Architecture: i386
  Date: Sat Apr  3 22:33:50 2010
  DkmsStatus: Error: [Errno 2] No such file or directory
  GdmLog2: Error: command ['gksu', '-D', 'Apport', '--', 'cat', 
'/var/log/gdm/:0.log.2'] failed with exit code 1: cat: /var/log/gdm/:0.log.2: 
No such file or directory
  InstallationMedia: Ubuntu 10.04 "Lucid Lynx" - Beta i386 (20100318)
  MachineType: Dell Inc. MP061
  ProcCmdLine: BOOT_IMAGE=/boot/vmlinuz-2.6.32-19-generic-pae 
root=UUID=573e9e29-1dc2-44f5-a460-145306d06262 ro quiet splash
  ProcEnviron:
   LANG=en_GB.utf8
   SHELL=/bin/bash
  SourcePackage: xorg
  dmi.bios.date: 06/27/2007
  dmi.bios.vendor: Dell Inc.
  dmi.bios.version: A09
  dmi.board.vendor: Dell Inc.
  dmi.chassis.type: 8
  dmi.chassis.vendor: Dell Inc.
  dmi.modalias: 
dmi:bvnDellInc.:bvrA09:bd06/27/2007:svnDellInc.:pnMP061:pvr:rvnDellInc.:rn:rvr:cvnDellInc.:ct8:cvr:
  dmi.product.name: MP061
  dmi.sys.vendor: Dell Inc.
  glxinfo: Error: [Errno 2] No such file or directory
  system:
   distro:             Ubuntu
   codename:           lucid
   architecture:       i686
   kernel:             2.6.32-19-generic-pae

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