When strange magical creatures including something resembling the Minotaur begin to attack in Toriizaka, they are all confronted by a man with a strange ring and belt calling himself "Wizard".
While trying to battle the Phantom Hellhound, Haruto is accosted by Shunpei Nara, who wants to be a magician just like him.
Shunpei Nara decides to go on live television to show off his burgeoning magical powers while Haruto tries to deal with both the young man and Hellhound's attempts to attack him now that it is clear Shunpei is a Gate.
While trying to fight a new Phantom that has appeared looking for a new Gate, Koyomi is suddenly attacked by Medusa.
Haruto must find a way to defeat Caitsith before he converts Takagi while also helping Koyomi discover the truth of her origins.
Shunpei, the donut shop worker, and Wajima all fall for a woman selling power stones, but she sticks close to Haruto, particularly when a Phantom appears to be chasing after her.
Yamagata must remember where he first met Manami before she falls victim to Gnome and falls into despair.
After a mysterious white Garuda delivers a new Magic Ring and stone to Omokagedo, Medusa sends out Ghouls to attack a young boy who is suspected of being a Gate as Haruto finds himself facing Phoenix.
After finding out that Hiroki is the son of his old friend Mikiko, Haruto suggests that he watches over him until the Phantom case is solved. However, Phoenix attacks Mikiko instead of bringing Hiroki into despair and when Haruto realises this, he searches for his father.
The National Security Agency's Section Zero obtains a green Magic Stone, and so Kizaki abducts Wajima so he can commission his own Wizard Ring. At that time, a Phantom arrives to create a new Phantom from a child traveling from Akita to Tokyo, leaving Haruto alone on his mission.
While hunting down Gargoyle and having to deal with Kizaki, Kamen Rider Wizard appears to fall into a trap set up by Phoenix.
After receiving a new Magic Stone from Kizaki, Shunpei believes that Haruto's abilities are getting better enough for him to start teaching him magic. Meanwhile, a high school student named Tetsuya begins an apprenticeship at a wagashi store and is targeted by the Phantoms.
As Haruto must keep Valkyrie and Medusa from placing Matsuki in despair, Shunpei questions his worth in helping in the fight against the Phantoms.
As Haruto fights a familiar Phantom on a film set, Koyomi starts to think that she remembers some of the people involved in the filming.
Haruto must stop Lizardman from bringing Chizuru into the depths of despair while trying to figure out what Satoshi's plans are.
Around Christmas time, Misa locates a new Gate in the form of a young man with a Yankee fashion sense named Tatsuro, and Haruto must get to the bottom of what his hopes are in order to protect him from becoming a Phantom.
Both the Phantoms and Haruto keep an eye on the mysterious young man Kosuke Nitoh.
Haruto's and Kosuke's differing ways of handling things, from how to approach the issue on Phantoms to even eating doughnuts, causes a rift between the two magicians.
The three-way battle between Kamen Rider Wizard, Kamen Rider Beast, and the Phantom Hydra continues, with Oikawa's livelihood at stake as he is on the verge of becoming a Phantom. To try to get Kosuke to change his mind, Shunpei and Rinko tell him what really happens to Gates when they fall into despair.
While Haruto tries to help Shiho, a housewife whose life is falling apart around her after being attacked by Ghouls and the new Phantom, Rinko tries to discover the identity of a young man who got into a drunken fight, without knowing that he is the Phantom Phoenix.
Kamen Rider Wizard takes on the Beelzebub Phantom. Meanwhile, Rinko discovers more on the identity of Yugo, and discovers what had happened to him.
When Rinko disappears and all that's found is her bloodied ID, Haruto seeks out her attacker, unaware that Yugo has disobeyed Wiseman and acted on his own volition, with Rinko in the way of his goals.
With Rinko's life on the line, Haruto readies himself for a battle with Phoenix who has become more powerful, despite Kosuke's intention to take Phoenix's magical power for himself.
Kosuke's grandmother, Toshie, has appeared to visit him, but things get personal when she and Shunpei are targeted by the newest Phantoms.
Gremlin and Weretiger keep Shunpei hostage and offer to free him in exchange for Toshie. Meanwhile, Kosuke has a crisis over his choice to become the Ancient Magician, as it has brought danger to his loved ones. Toshie, however, is willing to give up her life to free Shunpei...
Kosuke discovers Medusa's true identity as the school-aged girl Misa and attacks her, only for Rinko to arrest him. Going on the magician's hunch that she's after another schoolgirl as a Gate, Haruto and Shunpei attend the school to try to thwart Medusa's plans.
When it is discovered that Mayu is the twin sister of Misa, the girl who has become Medusa, Mayu makes it her mission to seek out the one part of her sister that is still alive within Medusa, even though Haruto believes it is better to save Takako first.
Kosuke is meeting an archeologist to get the new Beast Color and a gun-like weapon. However, the BeastDriver is suddenly stolen. To make things worse, Gremlin and a new Phantom appear to defeat the magicians.
Kosuke must find a way to retrieve his Beast Driver and Wizard Rings back from Spriggan while Chimera tells him about his chance to eat him alive.
Gremlin unleashes a dangerous Phantom who assumes form of a man called Naitō. But unlike the Phantoms Haruto and Kosuke had faced before, Naitō is attacking humans without discrimination.