Takeru Tenkuji strives to be a Ghost Hunter just like his late father, Ryu Tenkuji. On his 18th birthday, he receives a Ghost Eyecon as a present from his late father's spirit. However, a mysterious monster appears, demanding that Takeru hand the Eyecon over. Takeru boldly confronts the monster, but...

Takeru has been revived from the dead and has obtained the power to transform into Kamen Rider Ghost. However, he now has only 99 days to obtain the Eyecons of 15 heroes. Akari, who can't cope with the lack of any logical and scientific sense this situation makes, is called by her professor to where another strange event has occurred. Meanwhile, Onari, knowing that the Gamma are targeting the hero Eyecons, instructs Takeru to go wherever strange events happen and sends him to the same place. Takeru finds out from the Hermit that the next hero to appear is Thomas Edison. However, he has no clue how to summon him. Meanwhile, the mysterious man in black is meeting with an inventor. What is his objective now?!

Sennin gives Takeru three hints: "England, woods, and gentleman thief". After hearing this, Takeru realizes that the next Eyecon is Robin Hood's. As if it were fate, a modern day thief has been going around the city robbing the rich and giving money to the poor while calling himself Little John. Takeru decides to track down this Little John but...

Takeru, who has obtained his third Eyecon, is told by Sennin that the fourth one, Oda Nobunaga, is not going to be easy to obtain. A new client, Kuroda, has come to the Mysterious Phenomenon Institute requesting their assistance as their president of the Sengoku Corporation has suddenly become cold and tyrannical and things have been seen floating around at the company’s headquarters. Could this be the work of a Gamma? Takeru starts investigating. Clues include the letter from a famous Japanese general and the suspicious behaviour of Sakuma, one of Kuroda’s secretary.

The apparent sounds of a machine gun in a supposedly abandoned school, about to be remodeled, catch the attention of Takeru and he decides to investigate. Takeru rushes to the elementary school to find the Gamma. As Takeru fights against the Gamma, the Rider that stole the Nobunaga Eyecon appears again and attacks Ghost. As this Kamen Rider attacks Takeru, he allows the Gamma to get away!

The next hero seems to be Billy the Kid. Takeru immediately gets Sennin's clue and at the same time, a new client comes to the Laboratory saying that something is wrong with their best friend. At the same time, Narita and Shibuya bring information of a sighting of the Mysterious Man. Akari and Onari follow the clue to the Mysterious Man and see him talking to Specter. The man, whose name is Saionji, talks about "what happened 10 years ago..."

All the inhabitants of the apartment building the friend lives in seem to be acting strangely as well. Takeru investigates and a Gamma appears. Takeru transforms into Ghost and fights but Specter appears. Takeru, who now has lost all fear, confronts Specter as well.

Ghost was able to defeat the giant Gamma with the Iguana Ghostriker and rescue Akari and Onari from the Gamma Commandos. Specter confronts Saionji, the mysterious man, who talks to him about what happened 10 years ago. The people from the apartment complex were being drawn to a monolith very similar to the one at Tenku Temple. It seems that the Gamma, Specter, Alain and Saionji all have their respective agendas.

With all 15 Eyecons gathered, Saionji barges his way into Daitenku Temple to the Monolith to demand the ability to take over the world. However, Takeru is taken into a giant mandala called the Great Eye that has appeared in the sky and is asked one question by a disembodied voice: "What is your wish?"

Takeru's wish to bring Makoto's sister Kanon back starts their search for the Eyecons all over again, but without the Gamma to point the way where they have scattered, Akari and Onari are worried that they are too late to bring Takeru back to life. The return of the Gamma Superior means they are on the right track, but something happens to Takeru after he transforms into Kamen Rider Ghost, again.

The Fukami siblings, Makoto and Kanon, are approached by Alain and Jabel. Makoto attempts to fight Jabel but is overwhelmed, which results in Kanon being kidnapped. Knowing that he can't beat Jabel as he is, Makoto tries to use the Eyecon of the "Escape King", Houdini, even though it never let him use its power before.

Takeru decides that he must follow in his father's footsteps and figure out a way to stop the Gamma by preventing them from ever entering the human world. However, the sudden appearance of several Gamma Commandos leads them to put these plans on hold, particularly when Takeru and Makoto discover that they are being led by a new enemy.

Alain has turned Makoto into Necrom Specter and now has full control of him, calling him the "perfect friend". Takeru immediately denies this and promises to get Makoto back.

Igor, using a Gamma's special powers, has infiltrated a company building. Meanwhile, numerous objects have become drawings in the city. It seems that a new Gamma has appeared. Takeru locates it, transforms into Ghost, and attacks but the Gamma does something nobody could expect...

Kanon, wanting to save her brother, searches for Alain by herself.

Takeru tries to teach the Gazai Gamma the meaning of friendship, but must also deal with both Igor and Necrom Specter seeking to destroy the "incomplete" Gamma.

Takeru is horrified at the things he witnessed in the Gamma World, but now with all 15 Eyecons gathered once more with Alain now an ally, he wonders what to do for the future. Their plans are waylaid when Adel sends Jabel to the human world once more to kill Alain.

Takeru and Alain have returned to the Gamma World. The former returns to save Makoto while the latter is set on finding answers. Takeru, under the impression that they both had the same objective in mind, loses sight of Alain. What are his true intentions? Meanwhile, Akari, Onari, and Kanon can’t do anything but wait. Akari continues trying to break the code of the Monolith while Onari teaches Cubi more about humans. Igor, on his side, continues with his plan. Adel has witnessed the birth of a new threat from the Praying Room...

After witnessing the murder of his father Adonis by his older brother Adel, Alain is unable to move and cannot overcome the situation and feelings it caused. Makoto has obtained a mysterious new Eyecon and goes in search of Takeru, who did not return after his encounter with the Gammaizers.

In the human world, Cubi is in a slump. While trying to clear his head, he is confronted by the Onpu Gamma. Akari, Onari, and even Igor are added into the mix. Will Onari and Akari be able to overcome this pinch?

The meeting between Adel, Alia, and Igor commence. At the beginning of the debate Igor gets a blow from Alia. While Adel "defeats" Alia when she changes into Dark Necrom, his strength is still not comparable with the Gammaizers. Takeru encounters a debate in the house of a Father and a daughter. After arguing they were attacked by a Gammaizer. The Gammaizer appeared to look weak compared to the previous but the soul of the father and daughter swapped bodies. Billy the Kid appears and enters the body of Kanon. Takeru works to help resolve problems between the father and daughter. The father turned out to have a new relationship with the fugitive known by Mayu the daughter. While the Dad was in the Gammaizer's body, Mayu in her Dad's body, and the Gammaizer in Mayu's body, can Takeru and the gang solve this mystery and find out what he's after?

In an effort to help Mayu and her Father - Shinichiro - Takeru and the others help Mayu to solve the source of a leak in her Father's workplace - which her Father's partner suspects is her Shinichiro...

After evading its attacks, Ghost Mugen Damashii is able to connect with the Perfect Gammaizer.

Takeru witnesses Adel's sad memories of losing his mother. Adel, on his part, connects with Takeru's sad memories of the loss of his father but the words he gives Takeru are completely unexpected…

"I killed your father."

Adel is Ryu's murderer?! Takeru becomes unable to hold back his rage.

Edith, as Kamen Rider Dark Ghost, welcomes Takeru, Makoto, Akari, Kanon, and Onari to the Gamma World and brings them to Adel but they are stopped by Igor and other Gamma. Igor approaches Akari and she decides to slap him repeatedly until he snaps out of it.

Takeru is on his last day of life as the Ganmaizers revive once again and assimilate Adel's body in order to create an entity completely fused with the Great Eye! The Ganmaizers have decided that humanity deserves to be eradicated, due to their inconclusive emotions and systems of logic and reasoning. Takeru is forced to watch them destroy large sections of the city! Makoto and Alain fail to stop them as their power is greater than normal! All hope lies in Takeru who tries to deal a final blow to the Ganmaizers but to no avail! They watch as they begin to disappear large amounts of people from the city...

Takeru and the others go to Ryu's tomb to let him know that Takeru was able to revive. The Gammaizer menace is no more and everything has gone back to normal. Takeru has returned to school and is being helped by Akari to catch up with his studies. Alain looks up to the blue sky and makes a decision. Makoto, who with Kanon has seen off Takeru, lets his sister know of a decision of his own.

A strange young boy holding a mysterious artifact appears and says: "The one with the power to change the world." What is the meaning of these words? The boy is attacked by the black Kamen Rider that appeared before.

A young writer possessing a strange book comes face-to-face with a monster using books for evil.

A man with a blue lion arrives and takes Touma to a place filled with books.

Touma is reunited with an old friend when he meets a member of the Sword of Logos who is also a father.

Ryou wonders why Touma is so obsessed with keeping promises as they try to figure out how to save Sora.

Kento struggles with his father's demons and wanting to talk to Touma.

Touma meets a swordsman who favors strength over wits, and also a new foe that locks his sword from being used.

Rintarou trains to avenge his master as Touma heads to Avalon to fix his sword.

Ryou is turned to stone during a battle, leaving the other swordsmen to stop Medusa without him.

Touma learns that everyone has their own role to play as he must wait for Daishinji to finish maintaining his new Wonder Ride Book.

A woman from the southern base gives a Wonder Ride Book to Kento, who makes an oath with Touma and Rintarou.

Kento is determined to find Calibur and find out what happened to his father.

Rintarou is dealing with injuries from his prior battle and Ryou is worried that Kento is going to do something stupid.

In order to save Kento, Touma and Rintarou head out to fight Calibur.

While the swordsmen mourn Kento, Calibur reappears for another battle.

Calibur and Saber race for the Table of Contents as the rest of the swordsmen continue their battle.

The gang is preparing for a New Year's celebration when Touma gets an offer from the Southern Base.

Touma is depressed from losing his companions while the Sword of Logos are torn on whether to trust Touma.

Touma tries to find a way to save Yuki; Rintarou and Daishinji see Touma protecting a Megiddo.

Touma meets a young man who likes building models; Daishinji wants to learn the true intent of Yuuri.

Sword of Logos learns of people being turned into Megiddo and confront Touma for the swords in his possession.

Touma learns of people gone missing after seeing fantastical things; Yuuri want a normal form to fight with; Daishinji challenges Touma.

Mei gets a call from the girl that Touma saved and the two discover that her sister is missing.

Touma and company plan to sneak into the Southern Base to meet with Master Logos.

Ogami receives some needed advice from his son; Reika blatantly lies to the swordsman about Master Logos' words.

Touma has a terrifying nightmare about Primitive Dragon; Mei talks with Rintarou as Reika heads to the Northern Base.

Kento is back and determined to seal all of the swords to stop the world from ending.

Touma trains with Primitive Dragon in order to save the boy in his visions.

Mei is tasked to ask Touma about writing a sequel to one of his stories; Ren leaves the Sword of Logos to join with Kento.

Rintarou tells Mei that he's going to fight with Touma, but still has unfinished business at the Southern Base.

Everyone welcomes Rintarou back to the Northern Base when Mei suddenly goes missing!

Rintarou is hard on himself after losing everyone he called family, including Mei.

The barrier to the Northern Base has been breached, letting in members of both the Southern Base and the Megiddo.

Touma and Rintarou head out to retrieve Kento and Ren while Master Logos schemes to get the remaining swords.

In light of Luna appearing before Touma, Master Logos unleashes an old friend of Yuuri to ensure her capture.

Touma is reunited with Luna, but she is quickly taken away again.

Master Logos declares himself God as he unveils a new book to fight Touma.

Touma learns that Kento plans to sacrifice himself to save the world; Yuuri takes Mei to try and change the mindset of his old friend.

Touma pleads for Kento to fight with the other swordsmen as they battle Master Logos.

Touma is able to win over Kento, but there is still unfinished business with Ren and Master Logos.

Tassel meets with Luna; Master Logos makes the swordsmen fight each other.

Tassel makes a visit to the Northern Base to fill Touma in on a few things.

Touma waits for Tassel to return with Luna, but an old friend finally catches up with him and he never shows.

Touma learns that Luna has not been captured; Ren battles Desast.

Storius unleashes the biggest book to overwrite the world; Touma is reunited with Luna once more.

Ten swordsmen head into a long and restless battle.

Touma comes face-to-face with Storius as the other swordsman participate in the fight of their lives.

Touma falls at the hands of Storius as Luna rushes to find him.

Touma and Kento encounter a reminiscent trio who are being targeted by a monster that is being hunted by a strange man with a demon inside of him.