I had the same problem on Windows 7 with Tomboy 1.6.0. It was caused by the two 
following lines in 
%USERPROFILE%\AppData\Roaming\Tomboy\config\prefs.xml:
    <search_window_x_pos>-32000</search_window_x_pos>
    <search_window_y_pos>-32000</search_window_y_pos>

The solution that worked for me was:
- quit tomboy
- open %USERPROFILE%\AppData\Roaming\Tomboy\config\prefs.xml in a text editor 
and replace the two lines mentioned above with:

    <search_window_x_pos>150</search_window_x_pos>
    <search_window_y_pos>150</search_window_y_pos>

- save, close, restart tomboy and everything worked again :)

I recently worked with two monitors, don't know if that might have caused the 
problem.
Good luck!

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https://bugs.launchpad.net/bugs/770307

Title:
  'Search All Notes' dialog not working in Windows 7

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