I got the same problem with with the Places Menu a fresh installation (from 
Vista to Ubuntu 8.10).
It didn't appear directly.

After 1 or 2 weeks, just to give me the time to get a little familiar
with Linux after years of Microsoft, I decided to download some more
applications via the Synoptic Package Manager .

Maybe I made  an error by downloading  a serie of equivalent applications just 
to find out which one suited me best.
So I can't know wiche program triggered the bug;

But from than on, the 3 first items of the Places Menu fired the gtkpod program.
I tried to correct the error with the 'Open with' menu.
In place I got the message 
 "Could not open the location file:///home/...  
 No application is registered as handling the file"

In mimeapps.list if found the line
' inode/directory= '

 Replacement by line 
'inode/directory=nautilus-folder-handler.desktop;'
corrected the error.

My story should give the hint that the bug doens't come from Nautilus,
but somewhere in the installing procedure of applications

-- 
opening a directory using an application change associations incorrectly
https://bugs.launchpad.net/bugs/260492
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