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Comment by switch007 | Hacker News Reader

Java also hates Xmonad (I spent ~30 mins trying workarounds and then gave up, as each time it went wrong, I had to restart my session)

I haven't messed with my xmonad.hs in a long time, but adding

  setWMName "LG3D"

to my startupHook fixed most of the issues for me.

I had to install kde as I couldn't get matlab working in xmonad. Found out about this fix only recently.

Another thing worth a try: export _JAVA_AWT_WM_NONREPARENTING=1

Worked for me last time I checked (Arch, xmonad 0.11-7, openjdk 7.u45_2.4.3-1, intellij-idea-community-edition 13-1)

what was the issue, are you using openjdk or sun/oracle jdk?