I can reproduce it. The problem (in my case, anyway) is due to the fact
that a package might be available from more than one source, and wajig
is including all these in its calculation, while only one version of a
package can be installed, of course.

I've written a bash script to simulate "wajig update", which I'm
attaching. It doesn't issue "apt-get update", but works with the current
apt and dpkg files. Then instead of displaying a count, it displays the
problematical packages. It doesn't need root. When I run the script, I
get:

bash wajsim
libmysqlclient16 5.1.61-0ubuntu0.11.10.1 5.1.58-1ubuntu5 5.1.61-0ubuntu0.11.10.1

** Attachment added: "Script to demonstrate problem"
   
https://bugs.launchpad.net/ubuntu/+source/wajig/+bug/892410/+attachment/3017471/+files/wajsim

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https://bugs.launchpad.net/bugs/892410

Title:
  Wajig displays incorrect new and upgradeable package count

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