I can confirm this bug on current Hardy (alpha 5).
The solution was to switch system / preferences / keyboard / layouts /
layout options... / alt//win behavior from default to super .
Now it works fine.
I didn't modify my kbd section in xorg.conf :
Section "InputDevice"
Identifier "Generic Keyboard"
Driver "kbd"
Option "XkbRules" "xorg"
Option "XkbModel" "pc105"
Option "XkbLayout" "hu"
Option "XkbVariant" "102_qwertz_dot_nodead"
Option "XkbOptions" "lv3:ralt_switch"
EndSection
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Cannot use Windows key in keyboard shortcuts
https://bugs.launchpad.net/bugs/12153
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