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This is a "Wild Mass Guess" entry, where we pull out all the sanity stops on theorizing. The regular entry on this topic is elsewhere. Please see this programme note.
Grand Unifying Guesses
Identified Time Lords:
Time Lord: Nickname TARDIS or Related Device:
The Doctor. The Doctor The TARDIS
Kyon The Slider N/A - he slides
Sailor Pluto, who is also possibly the Doctor's granddaughter Susan. The Sailor The Gates of Time and their immediate environs
Since Foreman clearly isn't her real surname, she is also possibly Susan Sto Helit... Unknown N/A
...which means the Doctor is Death in addition to everything else. Which makes a vague sort of sense, since Death is, as stated below, a Time Lord in Purgatory. That and the Doctor is a Walking Disaster Area and it's a very cold day in hell when Everybody Lives and downright arctic when the fatality count doesn't reach one before the end of any given adventure. The Oncoming Storm The TARDIS
Great Cthulhu The Dweller in the Deep R'yleh
Gordon The Mechanic A trash can, taken over by Oscar
Dr. Disaster N/A N/A
Nagi Homura N/A N/A
James Bond The Bachelor Can look like any Cool Car, and contains far more gadgets than its volume ought to allow
Sam Tyler The Master N/A
And Gene Hunt The Cop N/A
Jack Bauer The Bauer His Briefcase
MacGyver The Mac Gyver He builds them out of household objects as needed
Ms. Frizzle The Teacher The "Magic" School Bus
Beakman; Bill Nye and Mr. Wizard are other regenerations. The Scientist Beakman's lab
Donnie Darko N/A The jet engine.
Paul and Leto II Atreides The Emperor N/A
Prince Eric Charming The Prince N/A
Batman The Bat The bookshelf that leads to the Batcave, which is the inside of the TARDIS.
Willy Wonka The Chocolatier The Great Glass Elevator
Michael Jackson The King of Pop Neverland Ranch
Doctor McNinja is the final regeneration of The Doctor. He's replacing standard regeneration with sheer badass. The Doctor Presumably, The TARDIS, the same as his former form.
Vector Prime N/A is a TARDIS by virtue of scanning one for use as an alt mode
Primus The Creator Vector Prime, who was given a Spark as one of Primus' first energy-being deeds
Ryo Akiyama The Slider, meaning Ryo may or may not be Kyon's regeneration or pre-generation Milleniumon
Zordon was in his second to final incarnation, and used his final regeneration for the massive energy wave. The Sage The Command Center/Power Chamber
Tohno Shiki The Eyes His knife
Iroh, who is The First Incarnation of The Doctor, from before his actual series started. The Dragon (he chose the name "Doctor" later) Zuko's ship was his TARDIS.
The Angry Video Game Nerd, who, like the Doctor at one point, was trialed and sentenced by the Time Lords to lose his memories and be human. He regenerated into an angry young man who spends all his time playing horrible video games. He implies that it is his duty or destiny to play bad games, no matter how much he would like to escape, and his theme tune even begins with: "He's gonna take you back to the past..." The tragedy of this is compounded by the fact that he is "Chronologically Confused" about several things. It is possible that his clones are regenerations, and that he regenerated during a teleportation during the Star Trek episode. The Nerd The Power Glove
That Guy with the Glasses is obviously a regeneration of the same Time Lord which explains comparison between the two and their reacitons to one another. The Glasses The Swirly Chair
Both Hiro Nakamura and Takezo Kensei. The Fanboy, The Samurai N/A
Bill S. Preston, Esquire and Ted "Theodore" Logan are not only Time Lords, they're the first Time Lords. More like, Bill S. Rassilon! Rassilion, Omega The phone booths
Rufus is clearly also a timelord. As is Clarence Clemons in the Future. Are the other members of the E Street Band? The Other The phone booths; evidently a genetic form preference of the TARDISes.
Death (See Below and Above). The Reaper His house, which is bigger on the inside.
Cole Hawlings. The Doctor (2nd incarnation) I'd keep an eye on his Punch-and-Judy booth
L The Detective Wammy's House
... and he regenerates into Near. Also known as Aeon N Wammy's House
Prior to regenerating into L he was Fionn Maccumhail... The Thumbsucker N/A
... and between those incarnations, he was Paul McCartney of The Beatles. The Cute One N/A
... and has since regenerated into Peter Wentz of Fall Out Boy. N/A N/A
Blackadder. The Black Adder The time machine from Blackadder Back and Forth
Ben Tennyson......If the Doctor touches the Omnitrix when its in "collect" mode. The Shapeshifter? The Rust Bucket (or Kevin's car, provided it stays well away from 1976)
Gary Seven N/A N/A
Princess Rosalina The Star-Mother The Observatory
General Forsythe The General N/A
Tsunade The Legendary Sucker Sake bottle
Mr. Game & Watch is not only a Time Lord, but he has used his TARDIS to become Lord of Hammerspace. N/A N/A (An R.O.B.?)
All anime characters who display High Pressure Blood. The high pressure comes from having two hearts pumping blood extra hard. The lack of regeneration everywhere is simple- they do not know that they are Time Lords, and, as the Master shows, regeneration can be rejected. As they do not know it is a possibility, Their minds make it real. Those who believe that they can live badly enough do so, explaining all the death-defying stuff and revivals, which are more a case of convincing them that they can regenerate than externally forcing it. By extension, Fist Of The North Star takes place in Galifrey's more violent past. Varies Varies
Charles Ofdensen and Mr. Selatcia The Manager (Ofdensen) N/A
The Gentleman He even has a Time Lord-ian name. He's at the end of his regenerations, though. The Gentleman N/A
Doctor Ivo Robotnik, a.k.a. Eggman The Carpenter; The Eggman; The Walrus That hover thingy he's always floating around in. It's not nearly as destructable as his other devices, implying that it is in fact merely a plasmic shell. His very first appearance ever shows him extend a wrecking ball larger than the craft itself, so it obviously can distort space.
Mister Rogers The Champion The Land of Make Believe
Jesus, who regenerates into... The Savior N/A
Santa. The Toymaker His sleigh.
Sakura is a Time Lord banished to humanity and all the "angels" are other Time Lords meant to keep him in check. The Pedophile N/A
Malcolm Reynolds The Captain Serenity
Urdnot Wrex N/A 'SSV Normandy
Han Solo, later known as Indiana Jones and Agent Deckard and President James Maarhsall. The Archaeologist, The Scoundrel, The Blade Runner, The Fugitive, The President. The Millennium Falcon, Air Force One.
Dio Brando and Jotaro Kujo N/A Steamroller (Dio Brando)
Yuko Ichihara The Witch Her house, which has its perception filters on overdrive
Mega Man. X, Cyber-Elf X, Model X, Megaman Trigger, and Trigger's partial regeneration, Megaman Volnutt are his regenerations, flawed by the fact that he is a beta robotic Time Lord. More than just a robot, indeed. The Blue Bomber Eddie the Flip-Top Robot (Classic), Data (Trigger and Volnutt)
Zero. Yup. He's We Can Rebuild Him personified. The Crimson Swordsman N/A
Of course Dr. Wily, Isoc, Dr. Weil, and Master Albert are the same being. (And Wily the boat guy from Megaman Legends!) The Roboticist His castle, with the UFO as backup
Lazarus Long The Madman, Albert Einstein N/A
All of The Other Darrins Varies Varies
Simo Häyhä The Sniper Finland
Derren Brown, who is also a Jedi. The Mentalist N/A
Big Boss, and, by extension, his children. Big Boss, The Snake Any and every cardboard box he touches.
Clockwork. The Ghost His castle in the Ghost Zone
Ms. Hawking the jewelry store owner. N/A N/A
Cable and Nathanial Summers. The Messiah? circa Cable and Deadpool) Greymalkin
Cid. The Engineer The Airship
Mick Foley The Hardcore Legend Currently on loan to WWE and being used as the Hell in a Cell cage
Commander Kahn. How else was he able to send the agents to 15th century Italy? N/A N/A
Kiva Andru. N/A When the Glorft's Avatar prototype was changed to Megas, it also became Kiva's TARDIS (until Coop destroyed the time flux control unit).
Sheriff Andy Taylor. The Sheriff The Ford police cruiser that updated itself every year from 1960 to 1966
Phoenix Wright. The Ace Attorney The MASON System
The Nibblonians from Futurama. Varies Varies
Lelouch and, by extension,Mentok (See Below) The Chessmaster N/A
WALL-E The Woobie His ship
The President, whose regenerations include every president in U.S. history. This includes every President of the Continental Congress. Furthermore, the regeneration from Cyrus Griffin to George Washington was a result of the Time War. The President Currently takes the form of Air Force One, but can also become a huge mecha.
The Prime Minister, whose regenerations include every UK Prime Minister. See Above. The Prime Minister 10 Downing Street
The Prime Minister, whose regenerations include every Canadian Prime Minister. See Above. The Prime Minister Parliment Hill
In fact, it may be safe to say that each stable nation has its own Time Lord-in-chief, who maintains the illusion of a changing head of state in order to throw the normals off the trail. This is the true "One World Government" that all the conspiracy kooks are nutso about. Varies Varies
Kane. He's immortal, and there's even canonical evidence that he regenerates from wounds that should have killed him. N/A N/A
Zasalamel N/A N/A
The Undertaker. C'mon now, how many times have we seen him die, just to come back looking completely different and with a tweaked character? The Undertaker The urn
Alfredo Aldarisio N/A N/A
The Janitor The Janitor Sacred Heart Hospital.
Henry from Eureka - he has a sonic screwdriver N/A He apparently doesn't have one, as he had to find a different means to travel back in time. He could have simply lost it between the present and future, though.
The Cheat The Cheat The photo booth from Homestar Ruiner.
The Contributors (Each is a separate regeneration) The Contributor, This Troper TVTropes Wiki
The TARDIS The TARDIS The Doctor
The G-Man The G-Man His briefcase
Tom Clancy. N/A N/A
Michael Phelps- he apparently competed in the Munich Games. The Swimmer Unknown; definitely has a pool room, though.
Sherlock Holmes, who is also called Danuve and happens to be half Vulcan The Great Detective 221B Baker Street
John Munch N/A N/A
Dr. Henry Killinger The Diplomat The Magic Murder Bag
Every Ditz is a different regeneration of a Time Lord with power of Haruhi-esque proportions The Ditz Varies
Original Bubs (regenerated into Bubs) The Haggler Bubs Concession Stand (it's bigger on the inside)
Sam And Max The Freelance Police The De Soto (it's sentient and has a soul)
Kasuga Ayumu Osaka Chiyo's Dad.
Captain Price The Captain England
Stephen Colbert The Pundit The studio where The Colbert Report is taped
Chell Subject Name Here The Aperture Science Handheld Portal Device
Gilliam Jeager and Raul/Fiona Ganedan Helios Olympus for Gilliam The XN Geist for Gilliam, the Excellence for Raul and Fiona
Sergeant Johnson The Sergeant His cigar
The Time Traveller The Time Traveller The Time Machine
Lara Croft The Tomb Raider Croft Manor
Altair The Assassin The Animus
Dr. Gordon Freeman Dr. Freeman His crowbar
Kirby The Kirby Warp Star, or later, the Dragoon.
Alternately, every life form in every universe is a Time Lord at some point in reincarnation. Thus, the Ultimate Question is really 'How many Time Lords are there in total?' 42. Varies Varies

The following entities are younger versions of Haruhi Suzumiya, and by extension, Christ:

Drinking from the Holy Grail has increased Indiana Jones's life-span considerably.
Hence, he is also President James Marshall from Air Force One, Agent Deckard from Blade Runner, and Han Solo.
  • So he was the President of the United States in contemporary times, but becomes a minor bounty hunter living in a dilapidated hulk of a building in the future. What happened?
  • Clearly, when President Marshall tried to fight whatever it was that turned the Blade Runner world into a dystopia, he got in over his head. Political coups are terrible things.
  • He is one of The Patriots, who were the ones who put him on office under the identity of James Marshall.
    • Meaning Raiden did not, in fact, kill him. (Altaïr, on the other hand, did. See below.)
      • Precisely! The Indiana Jones soon to feature in Indiana Jones and the Kingdom of the Crystal Skull is, in fact, a clone who suffered extremely fast ageing.
    • Of course, since Han Solo lived a long time ago, clearly one of the Time Lords mentioned above gave him a lift to the past.
  • Alternative, non-retarded theory: Han Solo is a Time Lord and the Millenium Falcon is heavily modified TARDIS. He either regenerated into Indy, or travels forward in time and takes on the identity of Indiana Jones.
    • Why would the Millennium Falcon be a heavily modified TARDIS?
      • It's smaller on the inside. Weird, I know.
  • Time is cyclical— "This has all happened before, and it will all happen again". Hence, the far future is "a long time ago".

Battlestar Galactica's Cylon "skinjobs" are descended from the replicants in Blade Runner.
Renegade Replicants caused significant deaths. Eventually, public outcry led to the complete prohibition of androids. Cylons were invented to fill the void, and Replicants were completely forgotten... Until the Cylons rebelled and rediscovered Replicant technology.
  • Everyone knows that KITT, the Knight Rider car, is an early-generation Cylon prototype, which leaves only the following question: is he pre- or post-Replicants?

Much more likely, the Replicants are descended from the Cylons. They wipe out the Galactica—or they believe they have—and kinda feel sorry afterwards. Then they arrive at Earth, find out it's the fictional 21st Century, and what do they do? Make backdoor deals with the Tyrell Corporation: sell them their elite bioengineering skills in exchange for an insidious, more peaceful megacorp-driven thrust to Take Over The World. They'll figure out that Vichy Earth was not the good idea it seemed at the time on New Caprica and establish a Pinky And The Brain-style benevolent dictatorship. Harrison Ford's character is a victim of their massive Xanatos Roulette to soften public opinion towards Artificial Humans.

The following stories take place within different versions of the same computer simulation:
  • The Matrix, natch.
  • Tron
  • Homestar Runner, hence the complete lack of a fourth wall and the wonky physics, especially after the introduction of 423,827 computer viruses. Homsar is The One.
  • Saved By The Bell, hence the fact that the entire known universe is part of Bayside High.
  • Groundhog Day
    • For that matter, any story that uses a Groundhog Day plot without offering some in-universe explanation. (Except Run Lola Run.)
  • The Big O (and, possibly by extension, the 1980 Flash Gordon movie)
  • There is at least a theoretical chance that The Matrix is also Instrumentality, which would add all guesses in that listing (below) to this guess, and vice versa.
  • Could said simulation be the holodeck? If so, and the Matrix is Instrumentality which is also purgatory, then Star Trek is purgatory and by extension, so is Doctor Who.
  • The Ring, which may have been a prototype. A very buggy one.
  • Lyoko in Code Lyoko
  • And of course the entire Dot Hack franchise...
  • ...Not to mention Real Life!
  • It got really buggy in The Mothman Prophecies.
  • The "real world" of The Matrix could well be a long-post-Judgement-Day Terminator world, if you discount the Animatrix shorts.
    • Maybe the Matrix Movies exist inside the Matrix presumably to make simulation theorists look crazy, and the Animatrix shorts were created by the robots in order to distract people from the TRUTH!!!
  • Super Sentai

Princess Peach of Super Mario Bros was originally a Toad, but was hit with the Midnight Bliss attack of Demitri Maximoff from Darkstalkers, which was interrupted before she could be drained and reverted, leaving her an attractive human-like girl permanently.
I really wish I could take credit for this one, but it was actually put forward in this comic.

Purgatory is a diverse place with many people "working it off", and consists of...

The Following are the Christ or Sophia:
  • Aslan from The Chronicles Of Narnia. ...oh wait....
  • Mokona from Magic Knight Rayearth ...oh wait....
  • Everyone in Final Fantasy but especially Aerith (the hippy side) and Sephiroth (the one who gets to kick everyone's butts in the Apocalypse.)
  • Annie from Gunnerkrigg Court
  • Conan The Barbarian
  • The Emperor from WMG/Warhammer40k
  • Neo from The Matrix. "Whoa!"
  • Kaworu from Neon Genesis Evangelion
  • Captain Sheridan
  • Joan Of Arcadia
  • Haruhi Suzumiya (and by extension, anyone who is a younger version of her, plus Mick Foley)
  • Dave Jones
  • Collin, the Annointed One
  • The Tenth Doctor. Come on, reborn and saving the world on Christmas Day?
  • Tommy Oliver
  • Aura
  • Flash Gordon. Oh, come on! Saviour of the universe? He's for every one of us, stand for every one of us? No-one but the pure of heart can climb the Golden Grail? He even hangs out with a Jewish guy, what more do you want?
  • Jaye Tyler, if she isn't crazy.
  • Annabelle Sykes
  • Rosalina
  • Kiba from Wolf's Rain - he and his "disciples" all died so that the world could be resurrected.
  • Mork
  • River Tam. Hey, she was fixing Book's Bible for a reason.
  • Bertie Wooster. Jeeves is an angel sent to keep him on the right course.
  • That carpenter guy from The Bible. Hey, bear with me now. (Incidentally this is why Jesus preaches love towards your fellow man: at some point in time he will be that man. He will be all of them. With the possible exception of Mickey Smith.
    • (Possibly confirmed by Word Of God, literally. Matthew 25:40 is all this editor will say on the subject.)
      • (But the books that state he's not Mickey have been suppressed by the Vatican)
      • He's definitely not Uwe Boll. Jesus could not be that big an asshole.
  • In keeping with the above theme: The Avatar, who has been, and will be, all these people and more.
  • Kara Thrace. Or possibly also Gaius Baltar. Or Laura Roslin. Or Chip!Six. Or D'Anna. Hey, being the messiah of two entirely different (except kind of not) belief systems is a busy job — wouldn't you try and delegate some of it if you could?
  • Superman, who is also Moses.
  • Optimus Prime. He died for our sins. Repeatedly.
  • Kim Possible: She "can do anything". She saves the world on a regular basis, and when she isn't doing that, she's helping people offscreen, and remains largely humble. You'd nearly expect the series to end with her dying for our sins.
  • By the "actor theory" below, anyone voiced by Scott MacNeil.
  • Hikari, from Futari Wa Pretty Cure Max Heart, by virtue of the Queen being God (see below).
    • Wouldn't this also make Hikaru the Anti-christ?
  • Sailor Moon: She's literally referred to as the messiah, she can bring herself back from the dead and purify evil, and she rules over her own version of heaven in the future.
  • Mega Man X. It dosen't help that he was given a Hijacked By Jesus makeover in the Mega Man Zero series.

The entity Bender met duing his time floating in space in Futurama is an Integrated Data Thought Entity.

The following series/games are secretly spinoffs of Neon Genesis Evangelion:

Witch Hunter Robin and Pain Killer Jane take place in the same world.
One just uses magic terms for the Mutants With Unique Special Powers, and the other uses technobabble.
  • And both are set in one of the X-Men 'verses prior to mutants becoming known to the general public. Probably either the movie verse, or Evolution.

And of course, every fictional universe takes place in an interconnected world inside of the mind of an autistic boy named Tommy Westphall who likes snowglobes.
  • See: St Elsewhere.
  • Thus, Tommy is Mr. Bun.
  • Alternately, Tommy wasn't autistic at all, and we have a lot to expect from him once the current WGA strike ends.
  • Or maybe Tommy isn't autistic, but rather... psychic and just overwhelmed by all the multiverse's unfiltered input.
  • Which explains the random snowglobe moments in Psych, Burn Notice, Heroes... there must be more...
    • Um, Citizen Kane?!
      • No, his name is Tommy Walker, and he's not autistic. He's deaf, dumb, and blind, and he sure plays a mean pinball.

God is everywhere, so isn't it funny how you never see him in the same room as...

Cars and The Jetsons are concurrent follow-ups to The Matrix.
At the end of the Machine War, all of humanity was unplugged from the Matrix. Unwilling to move underground or share the ravaged surface with the Machines, humanity built cities above the clouds. The declined computing power ing from the loss of the Matrix knocked the Machines back to pre-Skynet levels. By the time they cleaned up the environment, the Machines had evolved into automobiles.

The Dark Tower (and its Beams) takes a different form in every universe. Some of these include: