User blog comment:SunyiNyufi/My idea of Mass Effect 3 ending with Indoctrination Theory and what would come after/@comment-1900300-20120326021859/@comment-4319257-20120327001453

Well, it never was stated "for the time being". The whole situation is that the Thorian's spored incorporated themselves into her organism. That's why her skin turned green. And they are stronger, than indoctrination. but since the Thorian is dead and can't give her orders, she has perfectly free will. Yes, technically she's indoctrinated. Technically, with no outcome of this. So a very elaborate an d unique "cure" for indoctrination exists. An analogy: the cure for corprus in Morrowind. The disease is incurable, but you find a way to render it's effects absolutely harmless, and live with them all good and well. Same can go to Shepard: a protagonist of the whole story can find unique ways to solve his/her problems.