News... I'm testing a fix... the problem could be not compiz but
metacity...

I changed this gconf value:

/desktop/gnome/applications/window_manager/current=/usr/bin/compiz
/desktop/gnome/applications/window_manager/default=/usr/bin/compiz

I've also a startup script launched at startup (executed by custom
~/.config/autostart/compiz.desktop):

#!/bin/bash
compiz --replace &
sleep 5
emerald --replace &
sleep 1
if ! pgrep compiz > /dev/null
then 
        compiz --replace &
        sleep 5
        emerald --replace &
fi
sleep 1
if ! pgrep compiz > /dev/null 
then 
        metacity --replace &
fi

Let me know if it's working for you too...

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https://bugs.launchpad.net/bugs/609931

Title:
  Continuous hard disk IO and system usage

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