In the Ghost in the Shell movie duology, Motoko Kusanagi is the star of the first movie but goes missing before Innocence, where Batou is instead paired with another agent. Motoko makes a brief appearance towards the end of the second movie.
The protagonist of Mobile Suit Gundam, Amuro Ray, is nowhere to be found in the beginning of Mobile Suit Zeta Gundam, and even when he does show up, he refuses to return to piloting mecha, leaving the new guard and the returning old cast to fend for themselves. He does return to the field in Char's Counterattack, however.
At the beginning of Kiddy Girl-And, Eclair and Lumiere, the heroines of Kiddy Grade, are apparently killed (the exact nature of their predicament is never elaborated upon) and never again mentioned in the series.
xXx: State of the Union: Vin Diesel's character from the original movie disappears and the designation xxx goes to another agent.
One of the Super Mysteries in the new version of the Nancy Drew series is centered on this. The title is ''Where's Nancy?"
Percy Jackson, eponymous character and hero of the Percy Jackson and the Olympians series, disappears during the months-long timeskip between that and its sequel series, The Heroes of Olympus. He is absent during the first book (aptly titled "The Lost Hero"), during which searches for him are going on in the background; however this is used as an opportunity to introduce three of the new heroes for the sequel series. He reappears in the second book, but has lost his Curse of Achilles, and the stakes are even higher this time.
In the beginning of the second season of Babylon 5, Commander Jeffrey Sinclair is abruptly transferred to the post of Ambassador to Minbar and replaced with John Sheridan, who proves better suited to handle the events of the new season. Sinclair makes a few more guest appearances in later seasons, but never returns as a regular again.
Ditto the Nerevarine during Oblivion. It is even mentioned that s/he left for Akavir.
Possibly justified by the centuries-long Time Skip for Champion of Cyrodiil in Skyrim—the previous titles all took place within the lifetime of a single man (Emperor Uriel Septim VII). It is, however, implied that s/he completed the Shivering Isles questline and is the Sheogorath you meet in Skyrim.
The protagonist of Knights of the Old Republic, Darth Revan, is inexplicably absent from the second game, whose own Exile likewise goes missing while searching for her predecessor. Star Wars: The Old Republic, however, sets the record straight by revealing that both pretty much died fighting the Sith Emperor.
A repeated pattern in the Dragon Age setting, with both the Warden(-Commander) of Origins and Awakening and Hawke of Dragon Age II mysteriously disappearing soon after their arcs are over. It is strongly implied that their disappearance is tied to the on-going Myth Arc of the series.
In Chrono Cross, Crono and Marle, the co-protagonists of Chrono Trigger, have both disappeared, and we hear that their kingdom, Guardia, has been destroyed. Only a few vague hints and references gives you any clue as to what happened. This is extremely upsetting for many fans because it's only been twenty years since the previous game. Although the DS release of Chrono Trigger pretty much tells you that they were killed off by a relatively minor villain from the first game.
Zigzagged in X3: Terran Conflict. X3: Reunion'sPlayer Character Julian Brennan is nowhere to be found for the first two-thirds of the game. During the Aldrin Expansion plot he turns up in Terran Unknown Sector 3, but after that he's never heard from again.
King of Fighters '99 had recurring protagonist from prior games, Kyo Kusanagi, go missing without a trace. Instead, the main protagonist was K', a man who happens to have the genes of Kyo thanks to experimentation. It's revealed that Kyo was being used for a clone experiment, whose results include playable characters Kyo-1 and Kyo-2, in order to take over the world. He eventually breaks out, and can even be fought against as a Bonus Boss if you score high enough.
Done in the Mother series. In Earthbound, Ninten, the protagonist of the previous game is completely absent and is never mentioned whatsoever, but in Mother 3, the protagonist of Earthbound, Ness, is mentioned a few times and shown on a film playing in a theater, however he does not appear physically.
In the Donkey Kong Country series, Donkey Kong himself was only playable in the first title, despite being the title character. In the second game, Donkey went missing and his sidekick Diddy had to look for him with his girlfriend Dixie. In the third game, both Donkey and Diddy go missing, so Dixie and her cousin Kiddy have to find both of them.
In Pikmin 3, the player controls a new trio of space explorers on their own quest to the Pikmin planet. But once there, they discover secret messages left behind by a mysterious Captain Olimar, the protagonist of the first two games and their fates become intertwined. By the end of the game, they have to rescue both Olimar and Louie, the two heroes from Pikmin 2.
Most of the Pokémon franchise, the hero of the last generation's games is never seen.
Played with in Gold and Silver, the hero is often referenced but their whereabouts are unknown. Eventually, in a now discredited spoiler, they're revealed as the True Final Boss atop Mt. Silver.
Pokémon Black 2 and White 2 is a direct sequel to Pokemon Black And White but the (now famous) previous protagonist is nowhere to be seen. Everyone else from the previous game, even your True Companions and mother, but the protagonist is nowhere to be seen. There were rumors early on that Hilbert appeared if you played as Rosa, and Hilda if you were Nate, but those were shot down... However in-game data shows both characters were Dummied Out from the World Tournament and unlike Red they weren't Heroic Mime's.
Five hats means that five tropers think it is ready to publish.
You are saying that you think this draft is ready to be published. That means the description is not ambiguous,
it doesn't duplicate an existing trope, there are at least three examples, and the title makes sense.
Is that what you meant to do?
You are saying this draft has a ready-to-publish hat it does not deserve and you are taking it back.