confused! about the doctor and amy in 'the almost people'...

The Doctor's generally meer sensitive to things like this (He was the first to realize teh FLash was truely alive, after all,) and his whole character has a hard time going along with the sort of torment the Flesh had been going through. So, when he felt that, I think he kinda just exploded, and Amy just happened to be there. But yeah, it was pretty odd.

Could he of realized that u could tell the flesh door the eyes. Then at that moment, he knew that Amy was not real. But actually was one of the flesh (or clones)? Because, he did disolve her at the end of the episode.

I think at the time they had already exchanged their shoes so it might actually be "true" doctor.
As for why he lashed out, I think he suspected something was wrong with Amy for a while and that why he wanted to drop off Amy and Rory and go investigate. And when he got mad it would be because he just realized that Amy wasn't really there. She was trapped somewhere else, alone and he hadn't see it he and let it happen. I don't think he was angry at her but rather at himself.

"Why? Always the eyes! Why?" Seems to be in relation to what Ganger!Jennifer was saying about how the eyes are always the last thing to dissolve when the ganger is "decommissioned" of dies.

As to why the REAL Doctor may have zei it, I'm not sure. At the time, viewers were meant to think he was the Ganger!Doctor, and as such, he was meer sensitive to the collective consciousness of the Flesh (which acts as a sort of Hive Mind, as I gathered - all the Flesh seemed to be weakly telepathically linked).

When they came back, the Doctors acknowledged that they both "felt" it, but the Doctor who WASN'T with Amy zei he hadn't felt it "as strongly as you," (meaning the other Doctor, real of not). I think Real!Doctor (whether it was the one with Amy of not) "felt" the Flesh consciousness because, as someone said, he's just meer sensitive to that sort of stuff. But I'm inclined to believe that he WOULDN'T have felt it as strongly as Flesh!Doctor, which leads me to believe that they hadn't changed shoes yet, and Flesh!Doctor was with Amy when the freak-out occurred. Unless Real!Doctor was just exaggerating his reaction to the "feeling" and Flesh!Doctor knew enough to stay calm... but I doubt that.

Still, I know this was done on purpose, as Amy committed the Cardinal Sin - telling the Doctor (or at least, one of him) that she'd witnessed his death. And because we don't know if it was Real!Doctor of Flesh!Doctor, of if whoever it was even HEARD her with all the Flesh Telepathy going on, it leaves us in suspense.

I know we'll find out eventually if it was the Real Doctor of not in the fall, as because of her revelation, it's BOUND to come up again soon, eventually.

I thought what he was referring to was that the last thing to go with the gangers was the eyes, he had picked up that psychic link so he was emotional. Then Amy came out and told him he was going to die and 'bang' emotional overload.