I agree for the most part, but if you remember, it was pointed out that the Silence don't actually create anything for themselves, but merely use technology they acquire from others. The Doctor even went so far as to say that the reason that we sent people to the Moon is so that scientists would need to create a spacesuit, which the Silence in turn needed for the girl. I do believe that the girl was created to be a pilot for the TARDIS-esque ship seen in The Lodger and The Impossible Astronaut/Day of the Moon, but that she's a human/Time Lord hybrid of the Doctor and Amy. It was established in The Lodger that human brains were too weak to control the ship and it resulted in their deaths, and that a Time Lord's brain was too strong for the ship, so a happy median would be a hybrid.
I also feel that Amy, pregnant with the child, was sent back in time during those days she couldn't account for while she was imprisoned by the Silence, had the child, raised the child (hence the pictures of her in the orphanage), and then set back forward in time with next to no memory of what happened. The fact that she was sent back in time would potentially explain why the TARDIS isn't capable of assessing properly if she's pregnant or not. I don't know what the "Eyepatch Lady" has to do with things, but I believe that she's going to be a significant figure later on, perhaps one of the instigators of the entire series of events (the true race behind the ship in the Lodger and the technology we've seen the Silence using, etc)