Obviously there are SPOILERS for the whole game
 
 
Before I go into it I just want to give my final impressions of the game.  I think Mass Effect 3 is one hell of a game, I loved almost every aspect of the game and I would go as far to say it's a better game that Mass Effect 2. I think it is better BECAUSE it was the follow up to Mass Effect 2 which did an incredible job of creating these connections with all the characters in the second chapter.  Watching these members like Mordin and Thane die had the impact because they were created so well in Mass Effect 2.  Anyway, I love the Mass Effect series, and I loved Mass Effect 3. 
 
Ok so I have read a lot of the "theories"  and while I would love to believe all that stuff, it seems a bit crazy and a longshot (but not entirely impossible). I'd also say that from just the base ending, I didn't think it was terrible, in fact it basically resets everything in the universe.  The Citadel is destroyed, all the mass relays are gone, meaning all these species have basically cut ties now and must find another way to travel around the galaxy.  
 
Here is where my question comes in. While I said the theories are kinda outreaching, I think the question of Shepard being indoctrinated or not is truly possible.  On the citadel you can tell, something isn't right with Shepard, something is different. Lets not forget that Shepard shoots Anderson in the chest, did the Illusive man really make him do it or was it the Reapers eliminating any other influences on Shepard? Also people have an excellent point where it shows Anderson seemingly pick the "evil" choice and the Illusive man picking the "good" choice.  Anyway, thats my little theory on the ending and curious on what you guys thought? 
 
Oh I picked the "destory" choice at the end if you are curious.

If you notice, harbinger IMMEDIATELY LEAVES as you wake up. Think about why he would just up and go after so much buildup