Vanilla Ubuntu 15.04 for me, and I have the same issue, mnemonics for
Swing apps do not work (e.g. JConsole, JVisualVM, IntelliJ, etc.), while
they work for SWT apps (e.g. Eclipse RCP apps).

The mnemonics (the underscore below the letter to press to make the menu
popup to appear) are not displayed in the menubar, and trying to press
the key combination by memory (e.g. Alt+F to open the File menu) does
not work either, as was originally reported.

Removing jayatana and rebooting solves the issue of the mnemonics, but
of course you lose the integration.

Also, it is very, *very* annoying that using jayatana prints out in the
console "Picked up JAVA_TOOL_OPTIONS:
-javaagent:/usr/share/java/jayatanaag.jar".

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https://bugs.launchpad.net/bugs/1415287

Title:
  Cannot access menus using the keyboard in Java swing applications with
  jayatana

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