Following the events of last episode and the activation of Index's defense mechanism Touma struggles to hide his amnesia from Index.

Touma confronts Ars Magna in a dangerous battle to rescue both Index and Deep Blood.

Touma faces off against Accelerator for the sake of Misaka and her 'sisters'.

Touma and Index head to the beach to avoid the fallout from Touma's fight with Accelerator. They also plan to meet Touma's Family but when they arrive they aren't quite what Touma was expecting.

After Accelerator frees Last Order of the virus infecting her brain, he’s attacked by gun-wielding Amai. Just as all appears lost for Accelerator, Yoshikawa arrives to help – but Amai isn’t going down without a fight.

With the Shorthand cancelled, Stiyl uses his magic to locate Oriana, causing a fight to erupt. In London, Laura learns that Oriana’s deal might not be for the Stab Sword, but for something else entirely.

Toma goes head-to-head with Bishop Biagio during an attempt to rescue Agnese. As the battle rages, the Queen of the Adriatic Sea is revealed to be a ship that can completely destroy Academy City.

Mikoto convinces Toma to sign up for a couples cell phone contract with her so she can get an adorable promotional item—but how far are the two willing to take the ruse before they get, well, maybe a little too close.

Accelerator manages to escape from Kihara, taking Index with him. Elsewhere, Toma and Last Order are on the run from Hound Dog—but the real threat to their lives may come from Vento.

When Accelerator deduces who is pulling all the strings in Academy City, no person—or building—is safe from his rage. Meanwhile, Toma goes on a mad dash through the city looking for Last Order, but what he finds is an angel.

Accelerator is injured, but even in that state he’s approached by a city-employed organization that wants to recruit him. As rumors of an impending war spread throughout Academy City, the students in Toma’s class decide to throw a party.

GROUP continues to order Accelerator around by giving him an assignment to kill Misuzu—which leads to Accelerator protecting the woman just to spite the organization when Skill Out attacks.

Team GROUP captures a blackmarketter for questioning who is later killed by an esper wearing a steel helmet. Etzali investigates the blackmarketter's home but a black ops team arrives. Etzali disguises himself as one of the operators but not before leaving some clues to his team. GROUP learns the blackmarketter sold a weapon to a sniper named Sunazara whose target is Monaka and Accelerator stops the assassination attempt after Awaki teleport him to Monaka's location. GROUP soon learns the assassination attempt was a distraction for another darkside team named SCHOOL, lead by the 2nd Level 5, Teitoku Kakine, and their real target was the particle engineering laboratory. To further complicate matters, the other teams like MEMBER, BLOCK and ITEM are getting involved as well. Meanwhile, the former Skill-Out Shiage is now working with Team ITEM, led by the 4th Level 5, Shizuri Mugino and her teammates, Rikō Takitsubo, Saiai Kinuhata and Frenda Seivelun, who treat Shiage with no respect. Learning about Monaka's assassination attempt, ITEM reazlies SCHOOL's real goal and heads to the particle engineering laboratory only to fight with the steel helmet esper. Despite killing the esper, Teitoku escapes with the device he stole, forcing ITEM to split up while Shiage runs away from SCHOOL's Pink dressed Assassin. Elsewhere, GROUP learns Team BLOCK is planning to steal Biological weapons from the city's virus vault but Etzali reveals the vault is a decoy as their real target is Satellite control center which controls the Hikoboshi 2 orbital laser weapon in space. Accelerator heads to the Satellite control center alone to fool BLOCK that they are falling for their trick.