So I finally found out what is causing the problems I describe. The guilty is:
GKB Keyboard Switcher! - 100% reproducible, even for new user - just add it to a panel, define two keyboard layouts, define your switching shortcut (I did both Shifts) - log out and save your session, log back in Voila, your click to focus inside window is gone! Can you reproduce this, Frederic? The correct metacity behaviour can be restored by removing the applet, logout and login back. Michal
