For me, this is caused by disabling the plugin "Insert Date and Time".

Thanks to Jens, using "LD_PRELOAD=/usr/lib/libpeas-gtk-1.0.so.0 gedit"
to open Gedit and change Preference to re-enable the plugin solved the
problem.

[Ubuntu 14.04.3 & Gedit 3.12.2]

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https://bugs.launchpad.net/bugs/1325063

Title:
  Gedit preferences windows is empty

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