Thanks for that clarification I should have checked it first. The
default and hence most likely way of running Synaptic will yield the
users home directory problem and synaptics running with root powers from
the user home might limit system-wide damage perhaps.

Yes I see but why would someone run first as root?  after maybe about
1999 or so protocol was to operate the workstation/server as a user and
that's also ubuntu's default set up.. I was also wondering why an
install script or other program would have to take over the ownership of
any directory I mean what would be the reason this isn't the first time
something like this has happened I've even seen them give critical
directories world rw permissions.. some sort of poorly conceived post
install processing phase perhaps.

-- 
clamav-milter chowns root/arbitrary directory
https://bugs.launchpad.net/bugs/365823
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