This is the amended alteration of the part 2 to Doctor Who: Out of Time Experience which I published. It features the 11th Doctor, Clara, Amy, Rory, River Song (Melody Pond), Strax, Jenny and Vastra.
I have also included paragraphs and a bit of dialog leading up to the Christmas Special The Time of the Doctor.
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In the TARDIS
"How did you know that Amy had been taken River?" The doctor asked River.
"I was just with Amy and Rory in the past when they got sent back in time by the weeping angel, Amy had just finished writing the afterthought in Melody Malone as she finished that part. She suddenly disappeared in a beam of light that I haven't seen before today.
Luckily I had my vortex manipulator so both of us only had to take a short hop to present day where the same particles were present in the air but judging by the scorch patterns in the ground near Clara's flat it is a small drop-ship that we are looking for." River replied to the doctor while the doctor fiddled switches to make sure that the TARDIS lands in Victorian London where Vastra, Strax and Jenny were.
While the doctor set the TARDIS on course for Victorian London, River flicked a switch which had a flickering light above it. The switch only played an incoming message which rang out throughout the TARDIS. upon hearing this the doctor finished up with the flight controls and went over the centre control and flicked a switch just below the centre column in the TARDIS. The switch that the doctor flicked started translating the message.
after a minute or two the doctor and River consulted the scanner just to find that even the TARDIS couldn't translate the message which was odd.
The TARDIS groaned as it landed while Rory and River got their balance back, the doctor was already out the door striding towards the house where Vastra, Jenny and Strax lived at. As the doctor approached the door without knocking Strax answered the door, Strax stepped out of the way allowing the doctor Rory and River to walk into the corridor as Jenny came down the stairs to greet the guests.
Jenny could tell that something had happened just by the expression on the doctor's face, Jenny then informed the doctor "If you wait in the study I will inform Madame of your arrival." With that Jenny disappeared up the stairs to get Madame Vastra, as Jenny knocked on the door before she heard Vastra's voice. Jenny entered the room to get Vastra to see the doctor.
"The doctor is here and he needs our help." Jenny said trying to keep the calmness in her voice although from past experiences when the doctor turns up out of the blue it is rarely a good sign.
Vastra was concerned as the doctor hardly turns up nowadays without Clara and even when he did turn up on his own he wouldn't rattle Jenny like this. Vastra and Jenny went to see the doctor, as soon as they both descended the stairs they saw that the doctor, Rory and River were standing in the corridor with Strax just a few yards away.
Vastra knew why the doctor was there although she needed him to say so she decided to act like she didn't know anything about why he was there. "What brings you here doctor?" was Vastra's opening gambit.
The doctor just looked at her as he tried to gauge if she knew or didn't know. Once the doctor knew that she was only acting like she didn't know why he was standing in their home in Victorian London.
"You know why we are here someone has snatched Amy and Clara out of all of time, we need your help, as well as Jenny's and Strax's."
"That seems like extreme lengths to get your attention, I can see why you came to us to assist you in getting them back."
"Let get going we have a lot to do so history don't plaster over the cracks or worse." The doctor, Jenny, Vastra, Strax and River went to leave and get back to the TARDIS once Vastra and Jenny picked up their swords also allowing Strax enough time to grab his Sontaran weapons from his trusted gun, scissor grenades, triple bladed brain splitters and all the above.
Also allowing him, Jenny and Vastra to change into clothing that are appropriate in case it escalates into a battle though all they did was change into the clothing they wore during the business with the great intelligence on Trenzalore.
Rory asked, hoping that he didn't have to wear his centurion costume "What do you mean or worse?" the doctor stopped in his tracks before turning on his heels before he walked back so he was standing next to Roy. The doctor then proceeded to look directly into Rory's eyes before the doctor said in a hushed voice so no one else could hear.
"If certain aliens know there is a crack in two time streams then they might try to force the time vortex open which will not only splinter the whole time space continuum but if the Daleks know about this then they will try to prevent fixed points, the whole time war begins again or worse, every race except Daleks just disappear with a pfff."
"A pfff?"
"A pfff not a bang just a pfff."
"I see now doctor we need to get things how they are supposed to be."
"Glad you see sense Rory, now come on."
The doctor and his companions walked towards the TARDIS and entering her. While inside the TARDIS the doctor used the scanner to get a lock on either time streams whether it is Amy's or Clara's the scanner did find a faint trace of Clara's time stream. So the Timelord and Professor River Song piloted the TARDIS to land at the exact place where Clara was now, the doctor prepared himself for the pep talk that people have before they go into battle but as the TARDIS materialised within the location of where Clara's time stream ended.
The scanner picked up two incoming messages both came through side by side on the scanner but it was Amy and Clara saying one word over and over on a loop. That word was "Doctor" upon seeing this the doctor started flipping switches before Vastra asked
"What are you doing Doctor?"
"I am trying to isolate the feed so I can use the TARDIS to hack their systems as I saw this twice before with once with the wire where she took roses identity and then with the data cloud and Clara, so in case anything like this happened again I set up my own version of the data cloud within the TARDIS. All I have to do is isolate one of the feeds then all we have to do is get the body back in the TARDIS then we only have to find one body and mind."
"That is brilliant." River said to the doctor following his train of thought.
"Isolated one feed and river can you throw that switch just their?" The doctor pointed at the console by to the left of the stairs heading below the console, he specifically pointed at one switch in particular that seem to be the only one pointing down. River went over to the console and flicked the switch that the doctor was pointing at, as soon as River flicked the switch. The scanner swirled and Amy's voice rang out through the TARDIS although her image wasn't on the scanner.
"Doctor why isn't Amy's image with the brunette on the scanner?" Rory asked the doctor.
"We managed to download Amy's mind to the TARDIS provided we keep her here she is safe."
"What Amy's body?"
"The TARDIS."
This slightly irritated Rory although he knew the doctor cared about Amy and this mysterious Clara though judging by the picture she was beautiful though to Rory not even as beautiful as Amy. River broke the tension in the air by saying "What's the plan?"
"Plan yes River, Rory you two must try to find Amy's body and get it back to the TARDIS so we can reunite her mind and body so no paradoxes can happen, fed up with the Squall attacks.
River also once you are back in the TARDIS call the Judoon Platoon that owe me a favour get them here immediately.
Jenny, Vastra find Clara's mind and anyone else that they have taken from time, release them and return them to the right time and meet me at the main control room.
Strax there is probably a few soldiers who will try and stop us out those doors your job is eliminate them. Also disable any space crafts so they cannot escape.
Finally I will confront the person behind this and odds are that Clara's body is with them but if anybody finds Clara's body bring it back to the TARDIS in one piece."