Good morning,

I had the same problem with hardy on my PC.
I did not have the proble with old Ubuntu releases.
I have changed the config:
Old xorg.conf:

Section "Device"
        Identifier  "radeondvi"
        Driver      "fglrx"
        Option      "DesktopSetup" "horizontal"
        Option      "OverlayOnCRTC2" "1"
        BusID       "PCI:1:0:0"
EndSection

Section "Device"
        Identifier  "radeonvga"
        Driver      "fglrx"
        BusID       "PCI:1:0:0"
EndSection

New xorg .conf
Section "Device"
        Identifier  "radeondvi"
        Driver      "fglrx"
        Option      "DesktopSetup" "horizontal"
        Option      "OverlayOnCRTC2" "1"
        BusID       "PCI:1:0:0"
EndSection

Section "Device"
        Identifier  "radeonvga"
        Driver      "fglrx"
        BusID       "PCI:1:0:1"
EndSection

The problem has disappeared when I set the two different PCI ids.
Unfortunately I used to have two different desktops (one per screen).
Now I have a single desktop with both screens.

I have to rtfm to reconfigure my two desktops in my xorg.conf.

See you.

-- 
[Hardy Alpha-5] fglrx log noise if dualhead unless ForceMonitors=nocv
https://bugs.launchpad.net/bugs/196617
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