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) If people really want to know. Bioware considers the "Synthesis" ending to be the canon ending. The reason for this is because it is the ONLY ending that ties up the theme that spanned all 3 games. The entire point of the series was about organics vs synthetics. To find peace in the galaxy. This is the ending they consider canon because it is the core essence of the game itself. 

 


No, not really.  Synthetic vs organic was only a really prominent theme in the first game.  From the second on, it is a secondary thing at best.  The more overriding theme of the games, is individualism for humanity vs cooperation.  The major choice you make at the end of the first game is whether or not to sacrifice human lives to save the council, and whether to put a anti alien or pro alien member on the council.  In the second game, the theme is hammered throughout the game, while synthetics vs organics is only important in the Tali missions, and in a more minor capacity with Edi.  In the third, it's again a fairly minor point.  No more important than the genophage, or the illusive man's plans... at least until the last few seconds.