Progress! 
  
So I had originally downloaded the 1.1 patch when I bought and downloaded the game.  I then applied it and found the game completely not working.  Fresh re-install, and then I went through the activation mess. 
  
Since then, while looking for more answers, I found a patch on the SEGA website that was labeled for foreign countries and digital download, but also version 1.1, so I downloaded this as well. 
  
Since I figured it could not hurt, I installed this patch.  Start up game, and what do you know, it worked like a charm.  Now, at this point I was never asked for an activation code, so as far as I know, my game is still not activated.  I can't say that this patch is legal to use in the US. 
  
Bottom line for me, it made it so I can actually play the game I paid for.  Hope this helps. 
  
Alpha Protocol patches 
  
Belgarath the Ancient One