I mentioned this before in a different thread but I can't seem to find it. What if all of this is masterminded by Angela? If she dreamed of a future where Nathan has to die but his body will become Sylar's, then this whole "You are my son" thing is technically true. She may have known that Sylar would become the image of her son, and depending on how long he remains that way (Next season's 1st episode could take place 10 years in the future) she could grow to love him like an actual son. She was willing to sacrifice Peter in season 1, Nathan may have been collateral damage this season. We all know how calculating she can be, so the whole crying and screaming act might have been for the benefit of those watching her.
She said she needed Parkman to save Nathan, he technically did save Nathan since his body is walking around. Maybe Sythan will make the tough choices that Nathan wouldnt and will help put an end to all of the "specials" problems or get them back into hiding and mixing in among us like the good ole days.
This sounds far fetched, but her dream of Peter exploding and following the plan happened well before the events actually took palce, she was talking to Charles about it but I dont know how far in the past that was. She could have spoken to Arthur about it which is why Arthur knew they needed Sylar for everything to work out. Arthur just took things too far and had to be dealt with.
It would be pretty cool to me to have her running the show and have the other belive that they were in control this whole time.
Just my thoughts...
