Same here (9.04 final, 32-bit). However, the bug is more serious than
notifications just being displayed in the wrong corner:

I have a multi-monitor setup, with two monitors of different size -
primary is 1920x1200 and second is 1280x1024. They are aligned at the
bottom edge, moving the top edge of the second screen down by 176
pixels. This area of 1280x176 pixels above the second screen is "dead",
and not used by applications (since it is not visible anyway).

The notification-system ignores this, and puts all notifications in this
dead area (I can sometimes see the bottom part of a notification at the
top of the screen) . Since there is no way of moving the notifications
to another corner, I can't see them at all!

So unless this will be fixed soon, I need to find a way to revert to the
old system immediately.

-- 
notification-daemon does not respect gconf preferences
https://bugs.launchpad.net/bugs/353921
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