edit: The other pieces of software is My Verizon Mobile.
If that does not go far enough, you can flash the stock firmware from Google http://code.google.com/android/nexus/images.html
And even if that were the only difference, then there's not much to be excited about.
If you really want that, you're one of the 2%, and you're probably interested enough to go through the now-painless process of rooting/unlocking and flashing a custom ROM to get a 'vanilla android'.
And the other 98% of Android users don't care if they have bloatware/Sense/TouchWiz/Blur, because they don't even know the difference.
So even though the Nexus is not always a stock Android phone anymore, even if it were, that's not enough to get that excited about, either as a developer/modder/tinkerer or as a casual user.