I'm also experiencing this behavior.  After upgrading to lenny 5.0.5, `debsecan 
--suite lenny --only-fixed` lists these advisories, as well as many others (648 
total):

CVE-2009-1300 apt (fixed, remotely exploitable, high urgency)
CVE-2009-1358 apt (fixed, remotely exploitable, high urgency)
CVE-2009-1300 apt-utils (fixed, remotely exploitable, high urgency)
CVE-2009-1358 apt-utils (fixed, remotely exploitable, high urgency)

Listing the details of the apt package:

CVE-2009-1300 (fixed, remotely exploitable, high urgency)
  apt 0.7.20 does not check when the date command returns an "invalid ...
  installed: apt-utils 0.7.20.2+lenny2
             (built from apt 0.7.20.2+lenny2)
  fixed in unstable: apt 0.7.21 (source package)
  fixed on branch:   apt 0.6.46.4-0.1+etch1 (source package)
  fixed on branch:   apt 0.7.20.2+lenny1 (source package)
  fixed on branch:   apt 0.7.20.2+squeeze1 (source package)
  fixed on branch:   apt 0.7.25.3 (source package)
  fix is available for the selected suite (lenny)

So you can see that the vulnerability was fixed in apt version 
0.7.20.2+lenny1.  I have apt version 0.7.20.2+lenny2 and debsecan considers my 
version vulnerable, so I believe this is a bug in debsecan.



      

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