Sorry, I did not read all the comments, but here are my 2 cents:

I honestly thought I might have a virus when the Update Manager came up,
and did not trust it as a valid application.  This is very strange
behavior, and will be quite a shock to anyone who has used a previous
version of Ubuntu, or has the common sense that normal, non-malicious
application windows do not normally open themselves.

How exactly is the novice supposed to know this window is ok, but the
one asking to scan their system for viruses is not?

-- 
[Jaunty] Update Notifier icon would provide useful status information
https://bugs.launchpad.net/bugs/332945
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