http://bugs.winehq.org/show_bug.cgi?id=9831
--- Comment #1 from Taisuke Maekawa fygar256@ybb.ne.jp 2007-09-30 00:58:08 --- I found.
I'm using uim input method by adding registry value that is "InputStyle"="offthespot" in \HKEY_CURRENT_USER\Software\Wine\X11 Driver. So I got the input method's window shown below the window of application.