I have not read 500+ pages, but here's something that may not have been said yet. It concerns the player indoctrination theory, as all the indoctrination theories use things that would only make sense to the player, not Shepard, the "colors" being the most obvious.
The entire "player indoctrination" thing falls apart on the basis that if it were true - which i highly doubt - it is not indoctrination, but
conditioning. The two are vastly different. Indoctrination would have you sincerely believe, with regards to a lot of data and potentially even evidence to the contrary, that your choice is the right one. Indoctrination is throwing Jews into ovens because you are convinced they are inferior, it is blowing up yourself and thousands of others because you are certain this will land you in paradise, it is weeping sincere tears for the death of your national leader, who is obviously also a god.
In Mass Effect, there is a system that says "blue = good" and "red = bad". We sometimes take red choices if we play good characters (or vise versa), because it makes sense in the context to do so. This clearly shows we are not "indoctrinated" by the red/blue system, we simply view them as they are: a reliable tool in the game.
Per the player indoctrination theory, this tool would then, at the very end, be turned completely on its head. We are also given almost no information or context, which means that we are more or less forced to rely upon this tool to choose the option that would, we hope, make sense for the Shepard we are (role)playing. Nearly no-one, in the end, goes for example to the blue colored choice fully believing that it is the right one (I didn't, at least), because there is no indoctrination. But there
is conditioning. With so much data missing, we go back to our reliable tool and pick the color that should match our Shepard. Again per the player indoctrination theory, this is now the "wrong" choice.
This is not ballsy, or genius. It is basically BioWare taking a swing at us and then saying "HA! Made you flinch." Or going to a campus and breaking a soda-machine that has been there for years, then pointing at people throwing coins in it in vain and shouting "WITNESS MY VAST POWERS OF INDOCTRINATION!" It is, as David Mitchell puts it,
the technique of the bully.
Frankly, I
hope they are merely incompetent at writing endings. Because this would be infinitely worse in my mind.