Ok, I JUST watched all three endings in my playthrough and then the video the op posted.
And now that you mention it, a indoctrination attempt wouldn't be completely out of the blue.
Especially when you consider the rubble in the "destroy" ending (failed indoctrination).
Meaning that Shep is knocked out by the beam and everything after that is an indotrination attempt, meaning that Shep still has to destroy the reapers (dlc?).
Now that I think of it, it really makes sense (which the normal endings does not, even though they we're really epic).
But that would mean BioWare just pulled off the biggest Trolling in the history of gaming!!1!I just can't see the franchise continuing if the current endings are true endings, not without a massive retconn (Oh the Relays? Yeah, we figured out how to make new ones), or the future ME games are bunch prequel (then why say: Don't delete your saves), or changing the franchise to the degree that it only lives on in the name.
All these options makes me sad.

Not to mention that they would have to build vastly different versions of the game for the various endings.
The indoctrination theory doesn't really explain the post credit easter egg conversation though:
www.youtube.com/watchWell, I really don't know how I feel about the endings, I need to digest.
If the endings wouldn't have destroyed the relays, I would have been fine with two of them (destroy and control, Synthesis is just wierd). Even if they we're a bit illogical and retconns Soverigns conversation in ME1 (maybe he didn't know why they we're harvesting organics and made it up:huh:).