Public bug reported:

Binary package hint: gdm

Upgrading GDM removes customized GDM configuration.

This configuration is now held in ~gdm/.gconf.  After upgrading the gdm
package, the ~gdm/.gconf directory is empty.  Since the new gdm utilizes
this area for configuration, upgrading the package removes
customizations.

Release details:
Distributor ID: Ubuntu
Description:    Ubuntu 9.10
Release:        9.10
Codename:       karmic

Package details:
gdm                                  2.28.1-0ubuntu2                            
GNOME Display Manager

gdm:
  Installed: 2.28.1-0ubuntu2
  Candidate: 2.28.1-0ubuntu2
  Version table:
 *** 2.28.1-0ubuntu2 0
        500 http://us.archive.ubuntu.com karmic-updates/main Packages
        100 /var/lib/dpkg/status
     2.28.1-0ubuntu1 0
        500 http://us.archive.ubuntu.com karmic/main Packages

Upgrading this package should leave customizations intact.

** Affects: gdm (Ubuntu)
     Importance: Undecided
         Status: New

-- 
Upgrading GDM wipes customized configuration
https://bugs.launchpad.net/bugs/491578
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