Comment #1 on issue 172 by [email protected]: On GNOME, modal dialog "file has changed" does not receive focus when opened
http://code.google.com/p/vim/issues/detail?id=172

Not knowing GTK at all, my investigation efforts stopped at create_message_dialog and gui_mch_dialog in gui_gtk.c. There is either something missing there, or there's a bug in the GNOME Shell window manager. Not much, but maybe this helps someone... :)

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