Java + Compiz

Start by downloading this patch for the jre engine, and then move it to the path of the folder and uncompress it.

$ cd /path/of/the/patch/
$ tar -xf patch.tar
$ cd patch

Now You will do a backup off rt.jr. Usually the path to rt.jr is /usr/lib/jvm/java-6-sun/jre/lib/. I suppose that you are using the latest sun java version.

$ sudo cp /usr/lib/jvm/java-6-sun/jre/lib/rt.jar /usr/lib/jvm/java-6-sun/jre/lib/rt.jar.old
$ sudo cp /usr/lib/jvm/java-6-sun/jre/lib/rt.jar rt.zip


Now you will apply the patch:

$ zip -f rt.zip sun/awt/X11/*
$ sudo cp rt.zip /usr/lib/jvm/java-6-sun/jre/lib/rt.jar

After that you will be able to run any application who use java, like mercury messenger.