Rati: here's what I did

    sudo apt-get install build-essential devscripts
    sudo apt-get build-dep unity
    apt-get source unity
    $EDITOR unity-*/src/PanelTray.cpp
      find PanelTray::Draw in there and replace GetGeometry() with 
GetAbsoluteGeometry()
    debuild -i
    sudo dpkg -i ../unity*.deb

I could upload the binary deb files for i386 somewhere if you'd like
(and if you trust me not to have inserted any malicious backdoors in
there ;).  My Debian-fu/time constraints do not extend to setting up
PPAs, sadly.

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https://bugs.launchpad.net/bugs/778256

Title:
  Notification area ("system tray") missing when using dual monitors of
  different sizes, with their bottoms aligned

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