All of the postal deliverers in Shigofumi are people who died.
Carrossea Doon in Madlax. He only stays around because of both his love for Margaret and the fact that he doesn't even remember he's dead. When he realizes that he fits in here, he actually fades away.
Schwarzwald in The Big O. Even after it's revealed that he's actually dead, he appears again, even killing a major villain, Alan Gabriel, though how alive Gabriel really was is a point of debate...
Enjou in the fifth Kara no Kyoukai movie was revealed to have been effectively dead all along, killed and resurrected in an artificial body by Araya, so that he'd bring Shiki to him. Soon after The Reveal, Araya kills him for good.
There was an earlier story about a girl who thought there was a ghost in her house and wanted it removed. Yuuko tricks her into wording it as "for my house to not be scary anymore". As it turns out, that girl is the ghost.
Appears in the hentai manga Alice in Sexland, of all places. The comic opens with Alice running away from her life of forced prostitution and falling into a hole, as per the original story. Near the end, however, the Queen of Hearts reveals that Alice broke her neck in the fall and that Wonderland is simply Purgatory - and that it's only big enough for one real person, who fills the role of the Queen of Hearts, meaning that the current Queen went through the situation herself and now has to move on to make room for Alice.
May apply to the Seo Kouji one-shot debut manga, Half and Half. The two protagonists are hit by a delivery truck right from the get-go, and in what smacks heavily of a Fridge Logic-inducer, Kami-sama gives them one week to sort out which one of them gets to die for keeps.
Digimon Tamers' Alice is thought to be a ghost. She was incredibly pale, and literally disappeared after she did all that she could to help the Tamers. It is also hinted by several characters that she was already dead. Word of God neither confirms nor denies this.
Shibumi was going to be one of these, with his body dead and his mind uploaded to the digital world. This is openly foreshadowed quite a bit, but in the end the writers liked him so much that they didn't want to shelve him for the entire (earth centric) finale. He turned out to just be in a coma, and eventually woke up.
Oo no Suefumi in Harukanaru Toki no Naka de - Maihitoyo. Unfortunately, he isn't quite aware of his true identity either, and by the time the characters discover who this mysterious Bishōnen was, he is already pretty much promoted to being the lead girl's love interest. Yep, Love Hurts.
In Tokyo Magnitude 8.0, Yuki died sometime during episode 8, as a result of a concussion or cerebral hemorrhage after being struck on the head by falling rubble in episode 6 and then walking across the city during a summer heat wave. This does not become obvious until the end of episode 10, since Mirai and the viewer had been seeing him as a ghost, and Mirai had convinced herself that his death in the hospital was All Just a Dream.
Several of Hiruko's clients in Nightmare Inspector are revealed near the end of their chapter to be dead. Then the end of the series reveals that Chitose, current host to Hiruko the baku, died in the aftermath of the earthquake long ago, and that the one we've seen for the whole series is Azusa's delusion.
Ghost in the Shell had an episode where Section 9 had to prevent the assassination of a rich recluse. They succeeded, then found out that he had been dead for several months. He'd had computer programs automatically manage his finances for him, that combined with him being quite a recluse, is why nobody realized he was dead.
Zorndyke: The day this uprising began, I have been dead ever since that day.
Suo from Darker than Black: Ryuusei no Gemini is revealed to have been dead for about eight years, in the same incident that vaporized Mao's original body. The one in the series proper is a sort of Opposite-Sex Clone made by her brother Shion, whose Contractor power is something a sort of duplication.
Inverted in Kagen no Tsuki, where it's assumed that Mizuki is dead, due to her ghost being one of the main characters. About halfway through the story, the main characters (and the reader) discover that she's really in a coma.
In Naruto, Uchiha Madara is revealed to be dead when Kabuto resurrects him. The Big Bad claiming to be Madara is in fact the person Madara chose to complete the plan. However, Madara had lived well beyond his supposed death in battle and ultimately died of old age long after his natural lifespan ended.
Hunter × Hunter: The Chimera Ant Nerferpitou has Kite's head in his hands after their fight, but nevertheless, Gon convinces Killua and perharps the entire audience that he was still alive. Even after witnessing Kite in a zombified state, he believes that the Ant still can restore him. However, Pitou reveals that he was just a moving doll, unable to ever come back to life, leading Gon to forget any value for both his life and Pitou's.
Kumoshichi from Ayakashi Ayashi was revealed to have died a long time ago with Atl causing Yukiatsu to realize that he's been talking to a ghost that only the two of them can actually see.
In Dragon Ball, Uranai Baba's fifth fighter was revealed to have been dead all along when his true identity was revealed as Son Gohan, Goku's adoptive grandfather, who had already had his Death by Origin Story.
Mixed in among Class 3-3 in Another is a person who is dead but has no awareness of it. Nor does anyone else, thanks to a combination of Fake Memories and Retconjuration. This "Extra" is the catalyst for a curse that causes those in the class and their immediate relatives to be vulnerable to Cruel And Unusual Deaths of varying degrees. The "Extra" is different each time, there is typically no way to identify the student until after graduation when he or she fades away, and this curse has been victimizing 3-3 Students for two and a half decades. The dead person in 1998, the year in which the story takes place, is actually the assistant to the home room teacher, Ms. Mikami, who is also Kouichi's aunt Reiko.
Popotan provides two versions:
The little girl in episode 4 is a ghost. Not surprising, considering her general creepiness.
The fact that Konami's dead is the ending twist of episode 9. Very surprising, given that the series had been moderately upbeat previously.
In its final chapter, Sayonara, Zetsubou-Sensei turned its own continuity on its head big time. Superoptimist Kafuka Fuura died long before the series began, and her organs were transplanted into all of Nozomu's students, which gave them her optimistic genes and ability to see her, as sort of a psychological experiment on Nozomu. Try watching/reading this series again, with that in mind.
Zig Zagged as part of a Twist Ending in the Zekkyou Gakkyuu story "The Ocean is Calling." It foreshadows that the main character drowned before the events of the story, and everyone is acting nice to try to keep her from remembering and passing on, while her love interest is being deliberately cold to her to try to get her to. Except that it turns out it's the exact opposite situation — she's the only survivor of an accident where her class' bus fell into the ocean. The others wanted to keep her from waking from a coma so she could join them forever, while the love interest was saving her life, making her question the situation so she'd wake up.
Since his first appearance in Kenichi: The Mightiest Disciple, Tsutomu Tanaka has appeared to be a Henpecked Husband-slash-Badass on a quest to avenge his master. We learn however, that his wife and unborn child died at the same time and the wife he was always on the phone with was just an automated line he was calling.
Forever Honey is a short manga about a single dad and his daughter. Near the end we learn Honey had been killed in a car accident and she was a ghost that only her dad could see.
In Alan Moore's version, this happens to Alec Holland in Swamp Thing - Swamp Thing was actually a totally non-human plant elemental which had arisen from Holland's dying body, and possessed his memories.
Teenage Mutant Ninja Turtles, Mirage continuity: In the Rat King's first appearance, he was revealed to apparently still be alive after his battle with the turtles in an abandoned factory. Later on, when an injured Splinter is trapped in the same factory, The Rat King appears periodically before him and acts as the rat's spiritual guide. Two months later, after Splinter heals enough to leave, he finds The Rat King's rag-covered skeleton.
In Hellboy, certain ghosts look and act just like living people, and even seem to fool characters who know that they died years ago. This includes the Lobster in "Conqueror Worm", a group of sailors that shares a drink with Hellboy in "The Island", and Harry Middleton in "Darkness Calls".
In Batman RIP, an amnesiac Bruce Wayne is helped out by a strange homeless man, Honour Jackson. It's not until Jackson and Bruce part ways that Bruce discovers Jackson died some time before Bruce met him.
This may turn out to be the case with Empowered; it was certainly implied very strongly in volume 6, wherein it is revealed that capes who got their powers through mysterious bargains come back, and that Empowered may have gotten her powers through such a bargain, and that she may have actually died on her first mission without actually realizing it. It makes sense (sort of) in context.
In Savage Dragon, there was a Doctor DoomExpy named Dreadnaught. He was an armored villain that was ruling over an entire country. After his initial fight, it was revealed that he had been dead for years and his armor was running without him.
In Nth Man: The Ultimate Ninja , it is ultimately revealed that the protagonist is an imperfect copy created by a psychopathic Reality Warper after the original was killed in an accident. This imperfection is why the present-day character is willing to kill as a ninja assassin, despite being an incorruptible pacifist in his youth.
In "Black Magic" a necromancer tried to raise a century-dead corpse only to end up with a mindless zombie. When he cast the spell to turn it back into a lifeless corpse he discovered that he himself was an ex-corpse which had been raised and trained by the mentor he scorned and despised.
In "You Do Something to Me" the main character destroyed a black magic amulet which he believed his wife was trying to kill him with, only to discover that it had actually been keeping him "alive" since his accidental death three years ago.
Back of Beyond: Tom McGregor is revealed at the end to have been a ghost inhabiting the petrol station after he died in a motorcycle accident.
Bunny and the Bull: The Main character's best friend was viciously gored to death in front of Stephen, causing what is strongly implied to be a mental breakdown. A clever viewer can pick up subtle hints starting from about halfway through, but it's still a massive shock
Anne Hathaway and the 'plane crash survivors', who actually were all passengers in Passengers. The reason the passengers were disappearing one by one from the protagonist's group therapy sessions was not because of a conspiracy, but because they accepted their deaths and were able to cross over.
Averted with David Morse's character. He was the pilot on the and knows he's dead, but can't move on because of his guilt over thinking (incorrectly) that he caused the crash. In a rather poignant turn, he adopts the persona of a Corrupt Corporate Executive who insists that the cause of the crash was pilot error and not mechanical failure. This is because he blames himself for not being at his post and being distracted when the engine caught fire.
Toyed with in Below they weren't, and probably a Take That to The Sixth Sense and its imitators.
Beetlejuice: Adam and Barbara Maitland don't know they're dead until they find the handbook, and the plot doesn't kick into gear until after they figure it out. Several "recently deceased" football players take a while to figure out they didn't survive the crash they were in.
Played With in Almost An Angel. The hero gets hit in a traffic accident, and when he wakes up, he's convinced (thanks to overhearing a TV about, curiously, the same thing, and taking it for real) that he's been sent back to Earth to help others. His delusions are helped several times by happenstance (he's shot at point-blank range by a robber with no injury, but shortly after another robber reveals that he put blanks in his partner's bullets, because the guy was so twitchy he might accidentally gun down a bystander) and he carries on his 'heaven-sent' mission. Near the end, a truck drives right into him - and passes through him. He cheerfully tells his friend, "I told you I'm immortal" and wanders off into the ending.
Even more appropriate, in a way, in that Totenkopf's actor (Sir Laurence Olivier) had been dead for 15 years when the movie was filmed, and his parts were entirely spliced in from scenes from old movies. So essentially, an actor who had been dead for 15 years played a character who had been dead for 20 years.
The girl who thinks she's the Final Girl in The Devil's Ground.
Averted in A Very Long Engagement where you slowly find mounting evidence that the main character's fiance has died. He is saved by another soldier who is an impostor after having been shot by a passing German plane, and given a dead young soldier's identity. When the soldier's mother visits the hospital, she realizes instantly her son is dead, and the young man in front of her has severe amnesia. Rather than turn him in, knowing the penalty would be death, she adopted him, and he lived as her son until she died, then he was committed to an asylum.
High Plains Drifter suggests that The Drifter who teachers the cowardly townsfolk to fight is in fact the spirit of the dead town marshal, who was beaten to death by the outlaws threatening the town and is now out for revenge on them. Unfortunately for the townspeople, since they betrayed him to them and then stood back and watched them beat him to death, he's not very happy at them either...
Johnny Depp in Dead Man. Though he might have just been dying slowly the whole time. Nobody probably knows for sure.
Waking Life: Played with - the audience is never told if The Dreamer is alive or dead, though he strongly suspects he is, and the film keeps hinting at it. It's all up to the interpretation.
Halfway through Source Code, we find out that this is what's happening to our protagonist. Kinda.
Inverted in Ghost Dad. The main character spends most of the movie believing that he died in a car crash and came back as a ghost. He's actually in a coma and using astral projection, an ability that apparently runs in his family.
The horror film Walking The Dead focuses around a village full of dead people. The only people who seem to be alive are the American reporter, a drunk ex-cop, an axe murderer,a woman looking for her daughter and said daughter. Turns out the only people who were really alive were American reporter, a drunk ex-cop and the daughter.
Franklin and Celia in We Need to Talk About Kevin. It seems at first that Franklin divorced Eva (in a flashback he told Eva he wants a divorce) and got custody of Celia after the massacre at the school (Kevin was imprisoned, so neither parent would get custody of him), and hasn't spoken to Eva in a long time. However, the truth is, as the nonlinear timeline shows, Kevin actually killed Franklin and Celia BEFORE the massacre at the school. That's why Franklin never answered Eva's calls as Eva was out witnessing the aftermath at the school.
In Dead Mans Shoes, Anthony has been in Richard's head the whole time, and has clearly driven him completely mad.
The Uninvited 2009 has Anna's sister Alex revealed to be dead by her father at the end. Anna looks down and realizes that she's the one holding the knife that has just killed her stepmother, not Alex, who's now gone. Alex died in the same explosion that killed their mother, which was also Anna's fault.
The 2012 film Static reveals that the young couple who are being terrorized have been dead all along. The wife had shot and killed her husband and herself after their son drowned. The mysterious intruders terrorizing them are actually ghost hunters called in to help them pass on to the afterlife. The young woman that the supposed intruders were after is actually a spirit medium working with the ghost hunters.
Large Marge, the truck driver, picks up Pee Wee Herman in Pee Wees Big Adventure and relates the story of a truck driver who was killed making one final run. When she drops him off at a roadside diner, she tells him, "Be sure and say 'Large Marge helped you."' When he does so, the whole diner gasps and one of the drivers starts retelling the same tale, pointing to a picture of Large Marge hanging on the wall.
A WWII Flying Fortress is hit over Europe. The young co-pilot manages to get her home, saving all aboard, thanks to the advice and moral support of his highly experienced but critically wounded captain. As soon as they land the kid runs to drag a medic onboard for his CO. The man examines the apparently unconscious officer and shakes his head. "Sorry, son," he says. "He's gone, must have died instantly."
The vanishing hitchhikerUrban Legend. The story usually goes like this: Bob is driving home when he picks up Alice, a teenage hitchhiker. He drives her home and she goes into the house. He then realizes that she forgot her jacket and goes up to the house to give it back to her. Her parents answer the door. They tell him that Alice died ten years ago on the very road where he picked her up, but confirm that it is her jacket.
Ambrose Bierce's 1890 short story "An Occurrence At Owl Creek Bridge", which later became many films, the most famous of which was the French adaptation La rivière du hibou which was won an Academy Award and later became a Twilight Zone episode.
A short story by author Bruce Coville in a horror anthology in which a girl running away from home to her aunt's house and being terrified of the pond there. The girl later swims to the bottom of the pond and realizes she had actually drowned at the bottom of the pond when her leg got caught after finding her swollen, decayed body at the bottom.
Goosebumps gave us The Ghost Next Door, where the narrator is actually the ghost, along with Ghost Beach.
In R.Chetwynd-Hayes's short story "The Ghost Who Limped", a family is haunted by said ghost. Of course it turns out that the family is dead and the "ghost" is the one who's alive.
It's actually at the beginning, but in The Lovely Bones, the protagonist thinks she's escaped and only realizes she's dead (and falls into a limbo-like area) when she notices her corpse.
A character is revealed to be such midway through Bujold'sPaladin of Souls. There are multiple hints both subtle and otherwise and something odd is going on, but the formal reveal awaits Ista accepting her status as Cosmic Plaything once more.
"You have no fever. You don't even sweat. Your skin is the same temperature as the air, and if it weren't so beastly hot in this climate more people would have noticed by now!"
In Frederick Forsyth's The Shepherd, a young airplane pilot gets into trouble when his instruments fail, he gets lost in the English fog, and is low on fuel. When he thinks everything's lost, a Mosquito plane (World War II plane, already out of date in 1957 when the story is set) shepherds him to an old dispersal field, and he survives. There he finds hints that the man who saved him apparently was WW 2 pilot Johnny Kavanagh (the other plane had "JK" written on it), who shepherded many planes during the war. But then he learns that Johnny actually died fourteen years ago...
For a personal example, it's been surmised that Professor Binns, the ghost who teaches History of Magic at Hogwarts, doesn't know he's dead. He is extremely boring and, as the story goes, was so settled into his routine that after dying in his sleep he just got up the next morning anyway.
After much confusion, this is revealed (to the reader) to be the fate of the main character in Flann O'Brien's The Third Policeman.
In "Christmas Meeting" by Rosemary Timperley, a woman alone at Christmas is startled when a young man comes into her room, mistaking it for his (he was lodging in the same house.) She discovers that he is a writer, and when he vanishes suddenly, she reads the book of his own work that he left behind him. It contains a note from the publisher, stating that the man mysteriously died of a heart attack hours after seeing the ghost of a woman (from the description, obviously her) in his room.
Julia Jason Andelius, from Maria Gripe's The dung-beetle flies at dusk. She somehow found out about the mysteries behind an old house she owned in the Swedish countryside, but died before she could reveal them to the public... so, via mysterious phone calls, her ghost started dropping hints to the teenagers who spent a whole summer taking care of said home. It's not until the whole mystery is solved by the kids that we find out about Julia's passing.
In Washington Irving's "The Adventure of the German Student" a beautiful woman the title character slept with turned out to have been beheaded the day before.
Liar provides an interesting example. When he was introduced, Jordan was just an ordinary Annoying Younger Sibling to Micah. Then, Micah tells the reader that she had been lying and Jordan never existed. Then she tells us that he actually did exist, and he died in an accident when he was eight.
Another interesting example in The Raven Cycle with Noah. Mostly interesting because in The Raven Boys he did tell people on more than one occasion that he was actually dead, they just didn't believe him.
Titus: The episode "The Visit" has Titus, Dave, Tommy, and Ken (Papa Titus) trying to capture Juanita (Titus's homicidal, manic-depressive schizophrenic mom) whom they think escaped from the mental hospital again and is out to ruin Titus and Erin's chance at adopting Amy note who was sent to live with Titus and Erin after Amy's disastrous birthday in her run-down apartment, which featured her drugged-out mom passing out on the cake and her drunk stepfather nearly beating Amy when she confesses to calling Child Welfare on him. Titus, Dave, Tommy, and Ken have her cornered in the closet — until Erin comes in and tells Titus that she got a phone call from the Missouri police department with news that Juanita killed herself four hours ago. To drive the point home, Titus opens the closet and finds no one there and the episode ends with a heartbreaking message about how hard it is to be a parent and how Titus forgives his mom -- even though everyone now thinks he's crazy.
Also "The Tale Of The Prom Queen", where DeDe reveals herself to be the prom queen's ghost at the end. (Note: There was a subtle clue to that fact earlier in the episode. She described something as being "keen", which was outdated slang at the time.)
Subverted with Giles in the last season of Buffy the Vampire Slayer. Fans speculated that he was another aspect of The First Evil, who was intangible, because he didn't touch anything. Which would have meant that he was dead, because the First only impersonates the dead.
Oddly enough, this particular epileptic tree was deliberately planted by Joss Whedon throughout the first half of the season. Anthony Stewart Head later told an interviewer that, given all the retakes and effort involved, he didn't think the payoff was worth the trouble.
Played straight with the potential slayer Eve, in the same season, who was revealed to have been the First Evil in disguise when the real Eve was found dead in a motel room.
In LOST's sixth season and the final scene of the fifth, all of the characters in the flash-sideways are often considered to be dead as they have moved beyond their original early-season lives and into their next and even then they are gathering, one by one, in preparation on moving yet again into their next (and inferred higher) level of existence in the Grand Finale.
John Locke dies in the events of seasons 4-5 and is revived midway through the fifth season. Then it turns out that Locke actually was never brought back and is still dead; the person that's appeared to be Locke walking around for the remainder of the series has actually been The Man in Black assuming his form.
In the Scrubs episode "My Screw Up", Dr. Cox spends the second half of the episode being absolutely furious with JD after one of his patients died. It's revealed at the end that the patient who died was not the elderly man JD was seen treating earlier, it was Dr. Cox's brother-in-law and best friend Ben. Several hints are dropped during the second half of the episode, such as Dr. Cox being the only one who interacts with Ben and Ben not carrying around his camera (earlier in the episode he said he would carry it around till the day he died).
In season six Laverne is in an accident and declared brain dead. While the other characters come to say their goodbyes, Carla refuses to do so, and is followed around by a "ghost" Laverne until she finally accepts the loss.
Carla then asks Dr. Cox if he's ever seen ghosts of dead patients. In true Coxian fashion, he tells her "No, but then again, I'm not a crazy person." The writers wanted Ben to show up again then, but Ben's actor was busy doing something else, forcing them to do a much worse joke.
In the Doctor Who episode "The Unquiet Dead", the Doctor feels Gwyneth's pulse and realises she's cold and has been dead for some time, even though she's still moving and talking.
"Silence in the Library"/"Forest of the Dead" does this, as well. One of the archaeologists follows him around for quite some time before the Doctor points out that she no longer has two shadows and has had the flesh eaten off her bones. (He'd realized some time before, but didn't want to distract the others from following his plan.)
In "The Time of Angels", the Doctor is talking to Sacred Bob on the comm device, who tells him he's coming to them. Bob then reveals he's dead, the angels are using his voice, and by him coming to them, he means the angels coming to get them...
Melinda's best friend/business partner in the season 1 finale of Ghost Whisperer.
In an episode of The Twilight Zone, a woman on a road trip of some sort continuously sees the same hitchhiker along her way. The woman turns out to be dead, and the hitchhiker turns out to be Death.
Star Trek: Deep Space Nine had an episode wherein the Defiant stumbles upon a distress signal from a Starfleet captain and is eventually able to communicate with her. They become friends and eventually discover that she's running out of supplies, but if they push their engines to the limit they should be able to get there in time—until it's discovered that some of her supplies are tainted, moving the deadline up significantly. Taking a big risk, they push the engines to the limit and found the planet—only to discover that the captain had been dead for three years. An unusual energy field had been playing havoc with time; she was dead before they started.
In the series finale of Battlestar Galactica, it's revealed that Starbuck really did die when her Viper exploded. The "returned" Kara Thrace is an "angel", just like Head Six and Head Baltar, the only difference being that everybody can see Starbuck.
Another theory is that Starbuck was literally returned from the dead in another corporeal body, not as a "Head" character. This would fit with older European religious beliefs such as the Greek.
To clarify for those not familiar with the series: nothing is actually explained, and the matter is left open to speculation. However, she does pull an otherwise improbable Stealth Hi/Bye in the middle of an empty field.
In The Lost Room, the villain's son.
In Fringe, our universe's "real" Peter Bishop died as a young boy; his father Walter kidnapped Peter's Alternate Universe counterpart and raised him as his own.
The horror anthology Night Visions had two episodes like this. In "The Passenger List", a TSA official investigating a plane crash ultimately learns that he was one of the victims. In "My So-Called Life And Death", the protagonist suspects that the reason the guy she has a crush on can't see or hear her is because he's a ghost, but the real reason is that she and her family are ghosts.
It's revealed in the finale of Ashes to Ashes, that the series and its predecessor Life On Mars take place in a type of limboland for police officers, most of whom died in the line of duty. Meaning that all the characters involved are dead already (but don't realise it), except the protagonists - Sam was in a coma (his body kept alive while his mind/soul were mostly dead) in Life On Mars and Alex has just been shot at the beginning of Ashes to Ashes. It's implied that Alex dies for real at the end of Season 2 of Ashes to Ashes as she stops hearing/feeling things from the 'real world', and focus shifts off her fight to get back to her daughter, implying that she may be beginning to either forget her old life or accept death in Season 3. In the Series Finale, Alex is stated to be dead.
Depending on interpretation, the final episode of Ashes to Ashes may also imply that Dixon Of Dock Green, another British cop program, was also set in the police limboland, the main character having died in the earlier film The Blue Lamp.
In the Red Dwarf episode "Stoke Me a Clipper", Ace Rimmer (what a guy!) reveals after being fatally wounded that he's actually a hologram, the original Ace having died after his encounter with the crew.
The One Foot in the Grave 2001Comic Relief skit. Obviously it's set before the Tear Jerker finale of the series. And Margaret isn't reacting to anything Victor says because she quite often ignores him when he's on one of his rants. Right?
The Twilight Zone episode "The Hunt" is about an old man who goes out hunting at night with his dog and comes home to find that he died on the trip and is now a ghost.
The episode "The Hitchhiker" opens with a woman who's nearly lost her life in a car crash. Soon after, she starts seeing a mysterious hitchhiker which appears to her and only her, and she starts to think that Death is coming for her. It's only when she stops to call her mother that she realizes that she didn't survive that car crash.
There was an episode of So Weird where somebody kept writing the message "YOU'RE DEAD" for an old woman to find. It turned out that it wasn't an enemy threatening her, it was the ghost of her husband trying to tell her that she was, literally, dead.
The NCIS episode "Swan Song" starts out with a body bag being loaded into the van in a thunderstorm, hinting that someone important has been Killed Off for Real. The episode continues through flashbacks interspersed with Gibbs standing by the body in the autopsy room, while Mike Franks is standing behind him. It is foreshadowed a few times (notably when Gibbs sees Franks sitting in his couch before he actually arrives, or when Franks enigmatically tells him that he hears ghosts), but the big reveal comes near the end: The dead guy, of course, is Franks.
One of the twists late in season 6 of Dexter is finding out that Professor Gellar, the Big Bad of the season, was dead the whole time, and Travis, his accomplice and murderer, was imagining him and committing the murders he thought Gellar performed.
In Kamen Rider Double's movie, the main antagonists are a group of mercenaries-slash-terrorists called NEVER. It eventually turns out that they're the results of a failed Super Soldier project which revived dead people with superhuman strength and speed (NEVER is a contraction of Necro-Over). The Big Bad reveals that the project was inspired by Philip, one of the deuterotagonists, and keeps trying to pull Not So Different moments, only for Philip to keep responding by telling him to shut up.
Multiple characters on American Horror Story: Murder House are revealed to have been dead for years and their ghosts have become trapped in the house. Other characters die during the show itself, but it isn't known by themselves, other characters or us for several episodes.
One episode of How I Met Your Mother plays with this and the show's gimmick of Ted narrating to his future children. The show has Robin talking to her future children about how she got with their father Barney despite not wanting children. We find out she's unable to conceive, and she's alone on a park bench apologizing to her imaginary future children that they will never exist. Major Mood Whiplash.
In several episodes of Criminal Minds, characters who initially appear to be associating with the unsub turn out to be Dead All Along, as they were either the culprit's hallucinations or alter-egos, or corpses they'd kept around as if they were still alive.
Once Upon a Time has Lancelot in "Lady of the Lake". Turns out that, for the entire present-day storyline, Cora has been posing as Lancelot, having actually killed him sometime before the events of the episode.
In an early season two episode of Person of Interest, Reese, having successfully blackmailed The Machine into giving him a lead to finding the kidnapped Finch, investigates the life of Hannah Frey, a girl who went missing more than twenty years before and who Reese believes grew up to be Root, the kidnapper. After he and Carter investigate for a while, they end up finding Hannah's body buried in the back yard of a person who Root had murdered years before - Root was actually Hannah's best friend, who lost faith in humanity when nobody listened to her when she reported Hannah's kidnapping (which ultimately led to her murder).
Wilson was originally going to be revealed as this in the final episode of Home Improvement.
Kamen Rider Wizard pulled this one with Koyomi, the show's female lead, by revealing that she died of an unspecified illness some time before the show began. Her father, Sou Fueki the White Wizard, enacted the original Sabbat in an attempt to revive her, but the ritual wasn't powerful enough and just brought her back as a "doll" which required constant infusions of mana to survive. Eventually it's revealed that all the mana is crystalizing into a Philosopher's Stone, which Fueki wants to use to revive Koyomi for real. A major part of the final story arc is The Hero Haruto coming to terms with the fact that there isn't a way to save Koyomi without becoming just as bad as Fueki, and thus the right thing to do is to let her die a final death so her spirit can be at peace.
C'est La Vie Theatre's Bestiary is a compilation of three stories, all of which end with the narrator's death. The first one - the story of Jonah, from the whale's perspective - treats it as this type of twist, when it turns out that the whale is now a ghost, while the second story is the Hartlepool Monkey's Apocalyptic Log, and the third is Laika the dog telling her story just as she runs out of oxygen in space.
The main character in Lucille Fletcher's The Hitch-Hiker, originally performed as an episode of "The Orson Welles Show" in 1941 and rebroadcast for decades thereafter.
In Deadlands, there is a "Veteran o'the Weird West" Edge that lets you start with a higher experience level, but confers on you a random negative effect such as being alcoholic, wanted or insane. And the most severe of these effects is the player character being a Harrowed (a revenant type undead) without realizing it!
Proof opens with a conversation between Cathy and Robert in which the latter reassures the former that she isn't crazy. Except that she's talking with her dead father, which may punch a hole in that theory.
The protagonist in the video for Nickelback's "Someday".
Manbou-P's A Clingy Boy Sticking For 15 Years, alternatively, Pursuing a Cute Boy For 15 Years. In each of the songs, the singer is singing to a love interest who never responds to their love poems. Near the end of the song, the said love interest is revealed to have "died 15 years ago". Surprise.
Jin's Kagerou Project has an entire cast of dead characters, as that is how one obtains the eye powers everyone is known to have in the first place.
Folklore has a slight twist on this. Keats turns out to be a Halflife, which is similar to a ghost except created from the powers of Messengers and the fears and wishes of humans. He was created in the image of Ellen's dead childhood friend Herve, and the player quickly finds out the "office" they saw at the beginning of the game was in fact another part of the Netherworld.
Although Mary's death is established at the beginning of Silent Hill 2, the letter from Mary creates doubt in James' (and the player's) mind. That is, until Mary's death is confirmed at the end of the game. The twist is that she died less than a year ago and James killed her, not the illness.
The first letter from each chapter of Dead Space spell out "NICOLEISDEAD". Which she is. The person Isaac sees on the Ishimura is apparently a mental projection originating from the Marker.
Edge in Panzer Dragoon Saga. He's killed by Mustava right in the opening cutscene, restored to life by the Divine Visitor to serve as the newest dragon's rider, and once they succeed at merging the Heresy Program into Sestren, Edge is promptly killed once again, for good.
In the epilogue of Metal Gear Solid 2: Sons of Liberty, Snake and Otacon obtain a list of the personal data for the Patriots' high council, only to discover that all twelve members have been dead for 100 years.
In Metal Gear Solid 3: Snake Eater, Naked Snake (Future Big Boss) frequently sees a mysterious man who only appears while it's raining. At one point in the game Snake drowns, and in this state of "almost death" meets that man in a dream, at which point he introduces himself as The Sorrow. It's only after the "battle" with him that Snake learns the truth: The Sorrow was the lover of The Boss - Snake's mentor and mother figure - and was also killed by her willingly so when their respective missions forced them to clash.
In the end of Metal Gear Solid 4: Guns of the Patriots, it's revealed that Liquid has been dead since the first game and did not come back as a spirit to possess Ocelot. Instead, Ocelot brainwashed himself into thinking that he was the real Liquid as part of a massive Gambit Roulette to bring down the Patriots.
System Shock: "The Polito form is dead, insect. Are you afraid?"
Context: For half of the game the player character has been directed by Polito, apparently the only survivor to have a Voice with an Internet Connection, and although she's often insulting and cold, she's the only human contact that doesn't come through Apocalyptic Logs scattered around. A couple of those logs actually were recorded by Polito, who apparently used to be a little warmer, and who found an AI artifact that spoke English, or something like. Then the player is guided to where Polito's body is, and SHODAN, the Big Bad of the first System Shock, tells you that she allowed you to believe otherwise to "establish trust".
You're actually given subtle clues that the woman on the other line isn't Polito; for instance you pick up Polito's audio logs where not only does she discover Shodan's mainframe, but she's actually friendly and emotional, as opposed to the cold, heartless bitch who's guiding you. Xerxes outright tells you if you pay careful attention to him when he's taunting you.
Itsuki Tachibana in the second Fatal Frame and Choushiro Kirishima in the fourth.
In Prototype, it is revealed towards the end of the game that Alex Mercer did die at Penn Station and that the character we play is not Alex Mercer. It is The Virus which Mercer released before being killed. The Virus absorbed Mercer's DNA and adopted his memories and came to believe he is Mercer; though the viral monster is actually less of a dick than the original Mercer.
Excellen from Super Robot Wars Compact 2 was killed during a space shuttle accident before Compact 2 or Original Generation takes place, but was reanimated by a monster as part of the set-up for its evil schemes. Interestingly, she suffers the same fate in the Mirror Universe, but in that version her Mad Scientist parents make a cyborg Super Soldier out of her corpse instead and she changed her name to Lemon Browning.
Dante in Dantes Inferno didn't actually survive being stabbed in the neck in the beginning of the game. He is in fact just another one of the many damned souls in Hell, albeit one given a little more freedom as part of Lucifer's scheme to free himself.
Jyoji Hijiri of Shin Megami Tensei III: Nocturne. Hijiri died during the Conception and was reborn as a Mannikin, since he's cursed with an endless cycle of death and rebirth as punishment for committing the Ultimate Sin.
In Agarest Senki 2, the Weiss that Aina finds in the middle of nowhere that you see throughout the game is not really Weiss but is actually Chaos forming as Weiss. The real Weiss died during the part where you think Weiss stabbed Chaos in the beginning.
In Call of Duty: Black Ops, it turns out that Reznov apparently died during the escape in the second level, and all subsequent appearances - save for the flashback mission where you play as him - are hallucinations caused by Mason's psychosis. "Apparently" being the operative word, and they Never Found the Body. Part of the fandom is quite vocal that Reznov is, in fact, still alive.
Given that one of the secret messages, the callsign used on each mission, is XREZNOVXXISXXDEAD (Reznov is dead) and the other secret message, the transmission numbers translated with basic alphanumeric substitution, is OR IS HE THERE WAS NO BODY FOUND HE IS NOT WHO HE SAYS HE IS, they creators are definitely encouraging this. The Reznov you interact with for most of the game is not real, though.
There's also some of the intel files that strongly suggest he is still alive, and emails on the terminal from an alias that strongly sounds like Reznov.
In Age of Wonders, Merlin realizes that he can master the death sphere of magic without Gabriel's guidance because he had drowned before Gabriel "rescued" him in the beginning of the campaign.
In Strife, attacking the Oracle reveals that under its robe is a human skull on a non-human body. Oh, and its Spectre then attacks you.
In Solatorobo, there is the quest giver Galvan, who merely wanted Red to give his son his log and, hence, his last wishes.
Soul Calibur V indirectly reveals that Raphael is the host body that Nightmare uses as "Graf Dumas". The playable Raphael is actually his lost soul, tethered to this world by sheer willpower alone and his love for Amy.
In Wizardry:Tale of the Forsaken Land, everyone is Dead All Along. The Flash in the backstory actually killed everyone in the kingdom. All of the characters in the game, including yourself, are ghosts. As you fulfill requests throughout the game, the tavern gradually becomes empty since the people you aid move on to the afterlife after you help them accomplish their Ghostly Goals.
This is actually reversed in 9 Persons, 9 Hours, 9 Doors. Kind of. June, Junpei's childhood friend, actually died in the last Nonary Game, and she's trapped in a weird loop to try to get Junpei to contact her past self and give her the answer to the last puzzle of the game to save her life. It Makes Sense in Context.
Super Mario Galaxy: "I want to go home! I want to go back to my house by the hill! I want to see my mother!" The girl was shouting now, her face wet with tears. "But I know she's not there! I knew all along that she wasn't out there in the sky! Because... because... She's sleeping under the tree on the hill!"
In the game Deadlight, your character Randall spends the game going all through a zombie infested Seattle trying to find his wife and daughter. It's only at the end when he and Stella are trapped with her begging to be killed that he remembers that he killed his wife and daughter during the outbreak in his town.
Both Stocke and Heiss in Radiant Historia. Both of them died and were brought back from the dead as sacrifices for the ritual that holds off the destruction of the continent for a few more years. The only reason Stocke doesn't remember being someone else is because Heiss wiped his memories. Similarly, the Prophet Noah died sometime after withdrawing from public life five years before the start of the game (Possibly murdered, though natural causes is also possible given his age). Since General Hugo was the only member of the high command who knew this, he just pretended that the prophet was alive and started making his own declarations in the prophet's name.
The character Heracles (the party member who actively goes by that name, not the Nameless Hero or "General Heracles") in Glory of Heracles DS is actually Heracles's nephew, Iphicles. When Heracles agreed to help Daedalus in his experiments to revive his son, Iphicles gets hit by the blast, gains immortality, and believes himself to be Heracles. When the real Heracles is found and Iphicles regains his memories, he explains that he was already dead and simply fades from existance. Luckily, the real Heracles regains his memory and his strength and thus takes the same role in the party.
Despite apparently committing suicide by jumping off the roof of the hospital, it turns out that Liz, the chatty Welsh nurse from The Cat Lady, is already dead by the time we "meet" her, having been murdered by the first Parasite, Doctor X.
Snowe in Star Stealing Prince was killed in the Hopeless Boss Fight. The only reason he's still around is that the demon didn't want him to die, partly because if Snowe dies the demon dies, and partly for Snowe's own sake.
Wynne turns out to be this in Dragon Age: Origins. This is actually foreshadowed immediately after you meet her in the Mage's Tower, where a fellow mage expresses her concerns, saying that for a moment it looked like Wynne had died defending her from a particularly strong demon. You probably forget about it the moment you enter the next room, as Wynne is obviously alive. Much later, it turns out the mage was right. Before Wynne could fully pass away, however, she was possessed by a friendly Fade spirit that helps her stay in the material world a little longer. Wynne isn't exactly sure why, nor does she know how long she has left, but she intends to make the most of the extra time the (gradually weakening) spirit granted her.
In Hatoful Boyfriend, near the end of Nageki's route it's revealed that he's been a ghost the entire time, trapped in the library, and that you're the first person to see him ( except in the audio drama, where Ryouta can, and the manga, where both Ryouta and Oko San can... and maybe Anghel). His love for you finally frees him, causing him to depart for the afterlife.
Itsuki in Suika actually died years ago, beaten to death by her and Sayo's father (the crazy Shinto priest) after she threw Sayo down a flight of stairs fduring a fight.
In the fourth episode of Umineko no Naku Koro ni, Beatrice declares to the player that Kinzo Ushiromiya, the protagonist's grandfather and the reason the entire mess started, is in fact, dead at the beginning of not just the game in question, but all the other games in the series. And considering the number of important plot scenes the character has supposedly taken part in at the time of The Reveal, the implications are... complicated.
In Homestuck, we hear much of the exploits and greatness of Jade's Grandpa, only to find out he's been dead for some time and his corpse is stuffed and placed in front of a fireplace. Creepier still, Jade still refers to Grandpa as if he were alive and complains of his various elderly tendencies. Let's just say that he was eccentric enough that most readers believed his stuffed corpse was just a doll of himself he kept lying around at first.
Aradia is downright stated to have been "dead all along".
In L's Empire, this is revealed to be the case with Dimentio). Since he's a master of dimensional magic, it's more of a technicality then being any real hinderance.
The twist ending of movie critic/indie filmmaker Brad Jones' (aka The Cinema Snob) suspense thriller Paranoia.
Subverted in Red vs. Blue: Reconstruction, in which it turns out that Church (who had been a ghost ever since about halfway through season one) was not dead all along, but was actually an AI program who only believed that he had been a real person due to the memories of the person he was based on.
Then played somewhat straight when it's revealed Tex is really just an AI created from the Director's memories of his dead love.
In Season 10, it's revealed that Agent Connecticut was already long dead; the one we see in Season 7 is just her boyfriend masquerading as her.
In There Will Be Brawl, it turns out that Princess Peach had been killed immediately after she was kidnapped.
One of The Journal Entries has this turn out to be the reason a certain girl warns one of Ken's children away from the place her ship is. (Doubles as a Shout Out to Lost in Space, right down to the ship being a Jupiter mark II, with four people aboard, including an adolescent girl and a younger boy. Things just ended badly for them.)
Smosh: Partway through "Real Ghostbusters," Anthony is killed when Ian accidentally throws the scissors at him, stabbing his head. Later, they are told that only ghosts can see other ghosts...and IAN WAS ALREADY DEAD. When he picked up the scissors, Anthony saw them floating by themselves, and screamed, startling Ian into throwing the scissors at Anthony and killing him... yeah.
The TaleSpin episode "The Old Man and the Sea Duck" featured Baloo suffering amnesia and having to be trained from scratch by the old pilot who rescued him. Upon regaining his memories and leaving, Baloo returns to find the old man's place in shambles and learns the old man has been dead and gone for quite some time.
There was also the episode in which Rebecca met her perfect man... who happened to be the ghostly captain of a sunken ship. It was a while before she discovered she'd fallen for a dead guy.
In the Columbia short "The Jaywalker" (1956), a man, after giving the viewer advice on how to successfully jaywalk, turns to reveal a pair of angel wings on his back—suggesting that he was struck and killed while crossing the street illegally.
In Thunder Cats 2011, the Tiger Clan was stricken with plague around the time Tygra was born. The more prideful members of the clan rejected Tygra's father Javan's suggestion to seek help from Thundera and convinced him to make a deal with the Ancient Spirits of Evil. The Spirits agreed to save the clan but demanded that Javan sacrifice Tygra in exchange, since Tygra was destined to become their enemy. Javan couldn't go through with it and sent Tygra away in a hot air balloon to Thundera. The Spirits punished the clan by sending the plague back to the village, killing them all. The Spirits then cursed them with undeath and nightly transformations into mindless horrors.
Pumyra actually died during the invasion of Thundera. The other Thundercats didn't notice her as she was dying in the rubble, so her last thoughts were of resentment towards them. Mumm-ra resurrected her to be The Mole, a role she took with relish since it gave her a chance for revenge.
The part of "Allegro non Troppo" (known as the "Italian answer to Fantasia" and not to be confused with "Ma Allegro non Troppo") called "Valse Triste" follows a scrawny cat/kitten wandering through the ruined shell of a city house, showing its memories of how it was once the pet of the family who lived there. Then, just before we hear the crane with the wrecking ball approaching the house to knock it down, the cat suddenly vanishes, accompanied by a purple outline glow - it was already dead. Watch it here (the film is presented as a comedy-drama and the clip starts with a few seconds of comedy).