The mod seems to cause a crash of my system.
When I start the moded arduino the program starts. Then I can browse trough the menu. But it looks kind of doubled (with transparent borders) and some submenus become scrollable. If I scroll the include library menu or the examples menu the whole system crashes and ubuntu goes back to login screen.
I removed the command line (export JAVA_TOOL_OPTIONS ...) and the error doesn't happen. If I add it again the error is reproduced.
This happens with arduino ide 1.6.4 and ubuntu 15.04