Theory:Doctor Who television discontinuity and plot holes/The Almost People

The Doctor was trying to see if Amy treated him and the ganger differently so his outburst could just have been an act to convince her he was the ganger. Presumably they swapped shoes very early on.
 * Does The Doctor now know about his death? Towards the end the ganger Doctor says "this is my death i suppose" or words to that effect, to which the real Doctor replies "only this time we're not invited". The Doctor appears to know about his death after Amy told the Doctor she had seen it, in the scene where Ganger Doctor talks about the eyes asking "why?" when gangers are "executed". How does the real Doctor know about his death? If the shoes were already swapped at this point then this would explain it, however The supposedly ganger Doctor then gets angry at Amy due to sensing the flesh wanting revenge, the supposedly real doctor feels the same but not as strongly, so have they infact not swapped at this point? This would mean the ganger Doctor would ahve to have told the real Doctor what Amy had said.


 * The original Doctor does seem to have been the one Amy told about his death. In the Ganger Doctor's final moments with the real Doctor, the former talks about his death and the latter comments about it not being one he was "invited to". His earlier outburst could have been to continue the ruse that he was a Ganger being influenced by the Flesh, or he genuinely felt something about Amy not telling him before but being willing to tell his Ganger just so he could sacrifice himself for the 'real' Doctor. After all, he was trying to make a point about both Doctors being equal.


 * The Doctors appear to be sharing the one sonic screwdriver in all of their scenes together. But when Doctor #1 is knocked unconscious, and Doctor #2 is locked in the acid room, they both have screwdrivers.
 * We have seen the Tardis "create" a new screwdriver from the console in the eleventh hour, perhaps this happened during the cut between scenes
 * When the Ganger Doctor was created, so were a copy of his clothes and perhaps the screwdriver.
 * No, because the 'real' Doctor threw his Ganger the screwdriver at the end
 * The Doctor has two screwdrivers? The shark-bitten one from "A Christmas Carol" which has been fixed, and a brand new one.
 * No, the shark bitten one stayed in the shark. The TARDIS has the ability to make new screwdrivers, but neither Doctor had access to the TARDIS until a lot later on.
 * Just because they do share the Sonic Screwdriver, and that's what we see, doesn't mean another one wasn't created.
 * The Doctors are also seen to pass the screwdriver between one another when they are repairing the tracking console.
 * We don't have 100% proof to say that the half inside the shark was there by the end, but it seems likely. I believe when the Doctor was copied the screwdriver was also copied, and they just happened to be sharing the same one because they could, assuming they were actually sharing and one wasn't just fiddling with the other's briefly for some reason. By the end, both screwdrivers would have returned to their owners.
 * There are two Sonics. The Ganger Doctor had duplicates of everything the real Doctor had on him when it copied him. He gave the flesh Sonic back to him during the final escape.
 * ::: There can't be any unseen scene where the Doctor creates a second sonic because the TARDIS is stuck in the ground for this entire sequence of events. Any sonics had to already be on the real Doctor's person from the start or be duplicated by the Flesh. Duplicated sonics doesn't really solve the issue either as it just leads to some confusing scenes. This is what we saw: Ganger Doctor threw a sonic to real Doctor, they then each use a sonic on their respective missions (real Doctor's sonic usage actually having a purpose, Ganger Doctor's not being important to the story), then at the end real Doctor throws a sonic to Ganger. Either Doctor had two sonics with him initially (a spare on the off-chance he would be duplicated by the Flesh he was investigating and it wouldn't duplicate his sonic?), and somehow they both end up in Ganger Doctor's possession so he can throw one to the real Doctor while keeping one himself. That really doesn't make sense, especially since at the end the real Doctor returns the second sonic to Ganger Doctor. So what if the sonic was duplicated? That makes a little more sense that Ganger Doctor ends up with both before returning one to real Doctor; they could have been furthering their switch deceit by pretending they only had one between them, to give the point of 'real' Doctor's absolute trust in 'Ganger' Doctor more emphasis. But that still doesn't explain why real Doctor returns the second sonic to Ganger Doctor at the end! So none of the solutions presented so far work. I've got two possible solutions that I think take into account everything we saw: The most likely is that the script only ever called for one sonic, but Matt Smith never bothered emptying his pockets between scenes. The only scene with a 'second' sonic is when Ganger Doctor briefly analyses the acid to say it is overheating. My guess is that Matt regularly improvises sonic usage in Doctor Who scenes like this one and with the scenes shot out of order everyone just forgot he didn't 'have it' in that particular scene, until it was edited and was too late or expensive for a reshoot. Most likely, but boring!! FANFIC TIME! The episode played out the same, Ganger Doctor dies heroically saving everyone, real Doctor leaves with everyone in the TARDIS. A second sonic is grown and then used to dissolve Ganger Amy. "We will save you Amy! I had to destroy your Ganger body, but that isn't what is important. If only I could have saved that good looking chap... WAIT! His body isn't important!" The Doctor modifies his sonic and travels back in time to just after he and Ganger Doctor initially parted ways and gives his sonic to his sonic-less Ganger self (avoiding crossing time streams by not actually visiting his past self). The episode plays out as seen with Ganger Doctor backing up his analyses of the acid heating with sonic evidence. He dies heroically saving everyone else, a little confused why he had just been thrown a second sonic. The future real Doctor returns to the scene after the explosion, picking up his modified sonic and returns to the TARDIS. A little later Ganger Doctor finds himself alive, on the lawns of a manor, an older River Song running to greet him. He wonders to himself, how long will it take real Doctor to get Flesh to the Library. Solved! That must be what happened! If there are two Doctors and two Rivers next episode you now know why. I can't wait for the episode where the two Doctors find another vat of Flesh and an old astronaut suit, invite their friends' past selves to a picnic and pull the ulitmate prank!
 * The doctor gave ganger doctor his screwdriver but later they both had screwdrivers. Further on the doctor gave ganger doctor another screwdriver! Why?
 * ::: There can't be any unseen scene where the Doctor creates a second sonic because the TARDIS is stuck in the ground for this entire sequence of events. Any sonics had to already be on the real Doctor's person from the start or be duplicated by the Flesh. Duplicated sonics doesn't really solve the issue either as it just leads to some confusing scenes. This is what we saw: Ganger Doctor threw a sonic to real Doctor, they then each use a sonic on their respective missions (real Doctor's sonic usage actually having a purpose, Ganger Doctor's not being important to the story), then at the end real Doctor throws a sonic to Ganger. Either Doctor had two sonics with him initially (a spare on the off-chance he would be duplicated by the Flesh he was investigating and it wouldn't duplicate his sonic?), and somehow they both end up in Ganger Doctor's possession so he can throw one to the real Doctor while keeping one himself. That really doesn't make sense, especially since at the end the real Doctor returns the second sonic to Ganger Doctor. So what if the sonic was duplicated? That makes a little more sense that Ganger Doctor ends up with both before returning one to real Doctor; they could have been furthering their switch deceit by pretending they only had one between them, to give the point of 'real' Doctor's absolute trust in 'Ganger' Doctor more emphasis. But that still doesn't explain why real Doctor returns the second sonic to Ganger Doctor at the end! So none of the solutions presented so far work. I've got two possible solutions that I think take into account everything we saw: The most likely is that the script only ever called for one sonic, but Matt Smith never bothered emptying his pockets between scenes. The only scene with a 'second' sonic is when Ganger Doctor briefly analyses the acid to say it is overheating. My guess is that Matt regularly improvises sonic usage in Doctor Who scenes like this one and with the scenes shot out of order everyone just forgot he didn't 'have it' in that particular scene, until it was edited and was too late or expensive for a reshoot. Most likely, but boring!! FANFIC TIME! The episode played out the same, Ganger Doctor dies heroically saving everyone, real Doctor leaves with everyone in the TARDIS. A second sonic is grown and then used to dissolve Ganger Amy. "We will save you Amy! I had to destroy your Ganger body, but that isn't what is important. If only I could have saved that good looking chap... WAIT! His body isn't important!" The Doctor modifies his sonic and travels back in time to just after he and Ganger Doctor initially parted ways and gives his sonic to his sonic-less Ganger self (avoiding crossing time streams by not actually visiting his past self). The episode plays out as seen with Ganger Doctor backing up his analyses of the acid heating with sonic evidence. He dies heroically saving everyone else, a little confused why he had just been thrown a second sonic. The future real Doctor returns to the scene after the explosion, picking up his modified sonic and returns to the TARDIS. A little later Ganger Doctor finds himself alive, on the lawns of a manor, an older River Song running to greet him. He wonders to himself, how long will it take real Doctor to get Flesh to the Library. Solved! That must be what happened! If there are two Doctors and two Rivers next episode you now know why. I can't wait for the episode where the two Doctors find another vat of Flesh and an old astronaut suit, invite their friends' past selves to a picnic and pull the ulitmate prank!
 * The doctor gave ganger doctor his screwdriver but later they both had screwdrivers. Further on the doctor gave ganger doctor another screwdriver! Why?


 * If the doctor sterilized the flesh, why was Amy still flesh at the end?
 * You mean "stabilized"? I think the difference is that the other Gangers were independent, while Amy's was still controlled by the real Amy. Whether that meant she automatically didn't stabilize, or that the Doctor left her out of the stabilization field, I don't know.
 * Amy's flesh wasn't sentient as the others had been. She was still connected to it. Thus, it couldn't become human by the Tardis.
 * The Doctor switches shoes with his Ganger. However when he uses his sonic screwdriver to melt the Ganger Amy his shoes do not melt.
 * The Doctor switches shoes with his Ganger. However when he uses his sonic screwdriver to melt the Ganger Amy his shoes do not melt.

Clearly the "real" one was the one in the courtyard by the flesh pile, but when and how did these duplicates arise exactly? Is the Ganger leader / sad story-telling Jen the same as the quadruped monster? (Does it matter?)


 * When the Ganger doctor uses the Sonic Screwdriver to melt himself, Ganger Miranda Cleaves and Ganger Jennifer, why does Miranda's acid suit melt as well? It was not part of the flesh.


 * If Pond has been substituted by Flesh from the season start, there is a complication due to Neil Geiman's episode being out of the universe and very likely unreachable for technology of Flesh control. After all, it is out of time and space of our continuum.
 * No one knows exactly how the technology behind the Flesh works. Bearing in mind that Flesh Amy is a more advanced version of the Flesh seen in episodes 5 and 6, it is entirely resonable to assume that Flesh Amy can be controled outside of the universe.