Summary from http://en.wikipedia.org/wiki/Journey_to_the_Centre_of_the_TARDIS
Aboard a salvage ship, a space salvage crew, consisting of the Van Baalen brothers Gregor and Bram and the android Tricky, spot the TARDIS and deciding it would be worth a lot, salvage it.
Meanwhile, aboard the TARDIS, the Doctor and Clara are discussing why the TARDIS doesn’t seem to like her. The Doctor, believing that flying the TARDIS will help Clara to connect with it, turns it to “basic mode” to allow her to do so, and in the process lowers the shields. As he is teaching her how to operate it, the TARDIS suddenly shuts down and starts being shaken about, as the salvage ship is grabbing it with a magnetic beam. Clara picks up a small metal object, a magnetic beacon used by the Van Baalens, and is burned by it. They are thrown to the ground as the TARDIS jolts.
The salvage crew go to inspect their new salvage. They realise it’s leaking fuel, back off, and Gregor decides to eject it back into space, only to be interrupted by the Doctor who has escaped the ship, unscathed. Realising Clara is still inside, he convinces the brothers to help him back inside, offering “the salvage of a lifetime” if they would help. Inside, he sets the TARDIS’ self-destruct countdown timer and seals them inside as motivation to find Clara, the “salvage” he spoke of earlier.
Meanwhile, Clara wakes up in the battered TARDIS with a burnt hand and goes looking for the Doctor. As she explores the TARDIS and its contents she sees something following her, an ossified humanoid creature with glowing red eyes, and in panic she starts running.
While the Doctor and the crew are searching for Clara, using his hand held computer Gregor realises the salvage potential of the TARDIS and orders Bram to go back to the console room to strip it for anything valuable, eventually he climbs down into the consoles innards and is absorbed by one of the ossified creature. The Doctor, Gregor and Tricky hear his screams but continue to look for Clara. Gregor goes into the architectural reconfiguration system, “a machine that can make machines”, and steals from it, causing the TARDIS to become distressed and to start creating labyrinths to protect herself. Clara, meanwhile, finds herself in the huge library where she finds a book entitled ‘The History Of The Time War’. After reading a few pages Clara is forced to flee the library when she sees a creature she later refers to as a zombie hunting her. She soon finds herself back in the console room, relieved but alone.
The Doctor, Gregor and Tricky arrive in the console room and can hear Clara’s breathing, but cannot see her. The Doctor deduces that the TARDIS has created ‘echoes’ of the console room to protect itself. He is able to link the two iterations of the room for a moment and grab Clara from her ‘echo’ where she has been avoiding the zombie, who is now mimicking her actions. The Doctor then reveals to the crew that the self-destruct was a deception but soon realises that the engine is damaged due to a time leak somewhere aboard the ship. He takes Clara down to the engine room where he realises the leaking fuel is causing rods in the ship to break and fall. As they run, trying to avoid the falling rods, they run into the crew members, where Tricky’s arm is trapped by a fallen rod. Urging Gregor to cut his arm off as he could simply have a new one attached, however it is revealed that Tricky is not an android but is human – and Gregor and Bram’s brother. Gregor deceived Tricky after an accident wiped Tricky’s memory and led to his eyes being replaced with bionic ones as part of a joke. Gregor also had an ulterior motive: Replacing Tricky as Captain of the Van Baalen salvage ship after the death of their father.
Freeing Tricky Gregor, Clara, and the Doctor run to the TARDIS’s engine, passing through the mammoth chamber containing the Eye of Harmony (a sun perpetually on the verge of becoming a black hole, tapped for energy) while avoiding the creatures. They attempt to cross over but are trapped as the creatures are behind every door, soon breaking in. The Doctor reluctantly explains that the creatures are actually their future selves created by exposure to the Eye, displaced by the time leak, and tries to convince the others to alter their future to avoid them. Tricky successfully attacks the creatures but falls off the walkway; Gregor ignores the Doctor’s instructions not to touch Tricky, pulling his brother back onto the walkway, which leads to the two transforming into the conjoined twin-like creature they had just encountered.
The Doctor and Clara escape, seemingly finding a dead end. The conversation turns to an argument about the Doctor keeping secrets. Exasperated, he explains that he has met her twice before at different points in time and space, and that she died in both cases. Clara responds with incomprehension, and the Doctor accepts her innocence in the mystery. Clara mentions that she learned the Doctor’s name while exploring the TARDIS, but the Doctor sternly warns her against mentioning it, claiming that some secrets keep people safe.
The two finally make their way to the centre of the TARDIS only to discover that the engine has already blown up, its pieces frozen in time as a stopgap safety measure. The Doctor doesn’t know how to fix it until he sees Clara’s hand, where the backwards words ‘Big Friendly Button’ have been burnt onto her palm. Inspired, the Doctor returns to the console room, grabs the magnetic beacon, and climbs through the time rift in the TARDIS’ wall. He emerges into the past, the TARDIS rocking as the salvage operation begins. He throws his and Clara’s past selves the beacon, warning them of the future before vanishing. Clara again picks up the beacon and has her hand burned. The Doctor retrieves the device and sees the message “big friendly button” recently scorched onto its side. He presses it, the TARDIS is released from the salvage ship’s grasp, and the previous timeline is erased.
In the the new present, Gregor, Bram and Tricky are seen on their salvage ship. Gregor treats Tricky decently, echoing the Doctor’s earlier advice, suggesting that not everything was deleted. Tricky is now in the picture with his brothers and their father, while in the TARDIS the Doctor discusses with Clara how safe she feels with him.
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