same problem, seems to be down to gnome-settings-daemon not starting on
login. same problem for a clean new user account. starting gnome-
settings-daemon manually after gnome-session has started rectifies the
fonts and theme. attached .xsession-errors file

using hardy 64bit, asus m3a motherboard, nvidia 8500gt proprietary

gnome-session:
  Installed: 2.23.92-0ubuntu2
  Candidate: 2.23.92-0ubuntu2
  Version table:
 *** 2.23.92-0ubuntu2 0
        500 http://archive.ubuntu.com intrepid/main Packages
        100 /var/lib/dpkg/status

gnome-settings-daemon:
  Installed: 2.23.92-0ubuntu3
  Candidate: 2.23.92-0ubuntu3
  Version table:
 *** 2.23.92-0ubuntu3 0
        500 http://archive.ubuntu.com intrepid/main Packages
        100 /var/lib/dpkg/status

metacity:
  Installed: 1:2.23.610-0ubuntu2
  Candidate: 1:2.23.610-0ubuntu2
  Version table:
 *** 1:2.23.610-0ubuntu2 0
        500 http://archive.ubuntu.com intrepid/main Packages
        100 /var/lib/dpkg/status


** Attachment added: "xsession-errors"
   http://launchpadlibrarian.net/17761717/xsession-errors

-- 
Intrepid: Unable to start the settings manager gnome-settings-daemon
https://bugs.launchpad.net/bugs/272093
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