After I installed SU5 to my openSUSE Linux installation of JDeveloper 10.1.3.0.4, I run into extreme screen flickering, especially while updating JSF diagrams. Then I remembered a hint I got from Oracle support a while back while we were investigating something else. Well this did it and although I don't know if this works on Windows, I 'm putting it here for anybody in the same kind of trouble.
Open file $JDEV_HOME/jdev/bin/jdev.conf and add the following line
Note: JDeveloper 10.1.3.2.0 does not require this.