yea, the signs are pointing to it being a shady mission with cerberus connections...the ship (looks a lot like the ship in 2), the ai on the ship, the harper chick, the look of the weapons/gear, etc are all cerberus looking...find it interesting that this mission started before for ME1 and knowing of the reapers....it's like they knew about the reapers before hand, which cerberus did if i recall correctly, and trying to prepare...
another thing: looking at the harper daughter, then looking at miranda, i'm starting to think TIM created miranda to fill the void of his daughter being gone while she was on this mission....
what i'm hoping for and it's a big hope: that at the end of this game, they have us come back to our galaxy, and we find out that the ending for part 3 was indoctrination for shepard....in the next game, we end up battling a reaper 'shepard' while trying to rescue the real one....and in the 3rd game: we finally get to battle the reapers, especially harbinger...been wanting to fukk him up since me2...