“The Situation Beneath the Surface” “Suimenka no Jōkei” (水面下の状景)

Sousuke and Kazama investigate who is posting embarrassing and revealing pictures of Kaname on the internet. Meanwhile, Amalgam operatives led by Gates extract payment from the Balic military force that took on Mithril and try to reconstruct what happened in the battle.

“Ending Day by Day” “Owaru Hibi” (終わる日々)

Mithril and the SRT rescue refugees caught in a civil war in the African country of Balic. However, during the fighting, they discover that the enemy possesses advanced weaponry rivaling their own. They surmise that a highly funded, well-equipped organization may be supplying their enemies.

“5th Period Hot Spot” “Go Jikan Me no Hotto Supotto” (五時間目のホット·スポット)

A classmate accidentally opens Sousuke’s biohazardous container, causing a classroom quarantine. Sousuke later learns that the contents were not pathogenic, but destroys synthetic clothing instead. Relieved that there is no outbreak, he now fears the repercussions from his angry classmates.

“Uncontrollable Bluebird” “Mamanaranai Burūbādo” (ままならないブルーバード)

A lack of space for all of Jindai High’s student organizations prompts a review of each group’s numbers. Because they only have two members, the social science club agrees to give up their room through a contest to see which club can recruit the most members of the opposite gender. Sousuke participates, but his poor social skills fail to attract anyone to his club. Kaname, feeling sorry for Sousuke, decides to help out so he can avoid a bet he made with another club.

“A Fancy Without Honor or Humanity” “Jingi Naki Fanshī” (仁義なきファンシー)

Sousuke and Kaname discover that Ren Mikihara is a yakuza daughter whose members ask for their help to deal with a rival gang. Sousuke, in his mascot disguise, trains the yakuza members. When the rival gang kidnaps Kaname and Ren, Sousuke and his recruits rescue them wearing the special mascot AS.

“A Goddess Comes to Japan (Part 2: The Hot Spring)” “Megami no Rainichi (Onsen Hen)” (女神の来日(温泉編))

Sousuke, Kaname, Tessa, Kurz, Melissa, and their friends travel to an onsen (hot springs) for some rest and relaxation before Tessa returns to Merida Island. Sousuke sets up a defensive perimeter and booby traps around the girls’ bath, foiling the other boys’ attempts to sneak a peek.

“A Goddess Comes to Japan (Part 1: The Suffering)” “Megami no Rainichi (Junan Hen)” (女神の来日(受難編))

During a lull at the Mithril base after the events of the first season’s final few episodes, Tessa decides to spend the time as an exchange student at Jindai High to learn more about school life. Sousuke, however, finds the stress of guarding her overbearing and collapses from fatigue.

“The Warcry of Excessiveness” “Yari Sugi no Wōkurai” (やりすぎのウォークライ)

To prevent the school from disbanding the rugby team, Sousuke and Kaname help train them for an exhibition match against a rival school. Upon discovering that the players are timid and passive, Sousuke subjects them to grueling basic training to toughen them up, which helps them win the match.

“The Hard Sell Fetish” “Oshiuri no Fetisshu” (押し売りのフェティッシュ)

“The Patient of Darkness” “Kurayami no Peishento” (暗闇のペイシェント)

Sousuke and Kaname investigate bizarre incidents where a masked predator attacks schoolgirls and gives them ponytails. With the help of a local policewoman, they set up a trap to catch the attacker using Kaname as bait.

“The Pure Yet Impure Grappler” “Jun de Fujun na Gurappurā” (純で不純なグラップラー)

“Trespassing on Good Faith” “Zen’i no Toresupasu” (善意のトレスパス)

Sousuke and Kaname ask the school’s karate club to vacate their dojo, which is slated for demolition. However, the club refuses to leave, challenging Sousuke to a duel where they’ll leave if they lose. Sousuke defeats the club’s members with relative ease until he faces the club’s captain.

“The Hamburger Hill of Art” “Geijutsu no Hanbāgā Hiru” (芸術のハンバーガー·ヒル)

“Single-Minded Stakeout” “Ichizu na Suteikuauto” (一途なステイクアウト)

During a field trip to the park, the class selects Sousuke to be the model for their art project. However, Sousuke misinterprets the modeling advice he receives from their art teacher, turning the assignment with his classmates into a game of life-and-death.

“Summer Illusion of Steel” “Kōtetsu no Samā Iryūjon” (鋼鉄のサマーイリュージョン)

During a day at the beach, Kaname becomes upset at Sousuke’s insensitivity. When she goes off alone, she is asked to have tea with a boy who is enamored with her. Sousuke, however, believes that she was kidnapped and proceeds to rescue her from her apparent kidnappers.

“Hostility Passing-By” “Surechigai no Hosutiriti” (すれ違いのホスティリティ)

“A Fruitless Lunchtime” “Karamawari no Ranchitaimu” (空回りのランチタイム)

After Sousuke causes a panic at the school’s bread stand, Sousuke and Kaname have to fill in for the stand’s lunchtime duties, which raises the ire of the physical education teacher. He attempts to sabotage their bread, but he falls for Sousuke’s booby traps, when Sousuke was expecting that someone would tamper the bread.

“The Man From the South” “Minami Kara Kita Otoko” (南から来た男)

“A Hostage With No Compromises” “Dakyō Muyō no Hosutēji” (妥協無用のホステージ)

A secret admirer leaves a love letter in Sousuke’s shoe locker. Instead of finding the letter, he deduces that his locker was tampered with and promptly blows it up. From its fragments, Sousuke misinterprets the letter as a death threat and confronts his “stalker”.

“Into the Blue” “Intu za Burū” (イントゥ·ザ·ブルー)

Sousuke and Gauron fight each other within the confines of the Tuatha de Danaan hangar. As they struggle, Gauron activates his AS’s self-destruct mechanism to destroy both himself and the Tuatha de Danaan. With Kaname’s help, Sousuke jettisons Gauron’s AS from the submarine just as it explodes. Back at Merida Island, Tessa sends home the remains of two SRT members killed during the takeover.

“Field of Giants” “Kyojin no Fīrudo” (巨人のフィールド)

Kaname connects herself directly to the Tuatha de Danaan computer system and re-programs it while Sousuke heads to the Tuatha de Danaan bridge. He rescues Tessa and the crew, but Gauron manages to escape. As Gauron is about to destroy the Tuatha de Danaan with his Venom AS, Sousuke activates his Arbalest. The U.S. Navy calls off the attack on the submarine.

“Jack in the Box” “Jakku in za Bokkusu” (ジャック·イン·ザ·ボックス)

To discredit Mithril, Gauron uses the Tuatha de Danaan to attack the USS Bunker Hill (CG-52), which is patrolling just nearby. Using resonance, Tessa communicates to Kaname a plan to regain control of the submarine, then creates a diversion that allows Kaname to escape. Gauron’s men pursue her, but Sousuke and Kurz arrive in time to help. Kalinin visits the Bunker Hill to convince the U.S. Navy not to respond in force after Gauron fires two Harpoons at the ship.

“Deep Trap” “Dīpu Torappu” (ディープ·トラップ)

Overcome with guilt over Melissa’s condition, Sousuke lashes out at Kaname telling her that she is a burden. Overhearing the conversation, Kurz hits Sousuke telling him that Sousuke made Kaname cry and it is men like him that turn into bad husbands. Realizing his mistake, he looks for Kaname to apologize; however, with help from SRT traitors, Gauron takes control of the Tuatha de Danaan AI with a special program, holding Kaname, Tessa, and the command crew hostage.

“Venom’s Flame” “Venomu no Hi” (ヴェノムの火)

Tessa shares with Kaname the nature of resonance between two Whispered. Meanwhile, the SRT prepares for a mission against terrorists led by Gauron, who survived the Helmajistan incident and is wreaking havoc at Palau’s Berildaob island. During the battle, Gauron is captured, but Melissa ends up gravely injured.

“Engaging Six and Seven” “Engēji Shikkusu Sebun” (エンゲージ·シックス·セブン)

Melissa recounts to Tessa and Kaname how she recruited Kurz and Sousuke into the SRT. She said they were unlikely candidates while she was searching for new members; however, the combat skills they exhibit during a mission changed her mind. Sousuke later takes Kaname on a tour of the submarine.