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I have a very annoying issue with the X11 app on OS X when using it to run things remotely over SSH. Every now and then (it's pretty regular, I'd say about each 1-2 minutes), the app I'm in loses focus, and the keyboard doesn't get sent to it anymore. However, X11 is still the foreground app.

Any ideas on what could be causing this and/or how to debug this?

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What X11 app are you running? If you're using a window manager or desktop manager (ie. GNOME or KDE), do you have 'focus follows mouse' enabled? –  EmmEff Mar 1 '13 at 23:58
    
@EmmEff: I am just running a bunch of gnome-terminal windows without any desktop managers. –  houbysoft Mar 2 '13 at 0:27
    
@emmeff. This user is on OS X. There is no focus follows mouse feature. I use Terminal and have seen no such issues. Do these things you're doing require the X11 framework on OS X or can you get away with another terminal client? –  bispymusic Mar 2 '13 at 2:48
    
@bispymusic: it's much more convenient doing it this way, because I can just ssh in once and then launch multiple terminals on the machine. To use Terminal.app for this I'd have to open multiple ssh connections –  houbysoft Mar 2 '13 at 3:07
    
@bispymusic If you need focus follows mouse feature you can configure in XQuartz preferences. There's no default X11 in OS X 10.8 –  Eir Nym Mar 9 '13 at 23:22
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