I believe this was fixed recently:
compiz (1:0.8.2-0ubuntu5) jaunty; urgency=low
* debian/patches/029_default_options:
- fade.xml.in - make sure to subpress fade for notify-osd
(thanks to MacSlow)
-- Michael Vogt <michael.v...@ubuntu.com> Tue, 17 Mar 2009 19:01:09
+0100
Please reopen if you still have problems.
** Changed in: compiz (Ubuntu Jaunty)
Status: Fix Committed => Fix Released
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sometimes notification flickers when fading in
https://bugs.launchpad.net/bugs/331564
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