The story of the card game follows what happens when "Hairou" portals suddenly open, fusing five different worlds together. As a result, various mysterious "Exceed" powers are awakened in teenaged girls. An academy for these so-called "Progress" girls is built on the isolated Seiran Island in the Pacific. (Source: ANN)

In a world plagued by magical dangers and threats, there exist special warriors—known as Inquisitors—who are tasked with non-violently preventing these threats and nefarious actions. The Anti-Magic Academy is a specialized school built to educate and train these Inquisitors, which splits its students into small squads in order to train them to work together. Among these talented squads is the 35th Test Platoon, also known as the "Small Fry Platoon" due to its low ranking and incompetent members. However, everything changes when Ouka Ootori, a powerful yet rebellious former Inquisitor, is forced into joining due to her tendency to break rules and committing a serious violation: the killing of a witch. Tempers flare upon her arrival, as she clashes with their clumsy captain Takeru Kusanagi and argues with the rest of the squad over her views on witches. This eclectic group has a long way to go if they wish to succeed and climb the ranks at the Anti-Magic Academy: they must first set aside their differences and come to work together as a team. [Written by MAL Rewrite]

For thousands of years after its development, mankind used the written word for communication between people and generations. As millenia passed and technology became more prevalent, writing - and thus, communication as a whole - diminished, until it could only be found on cell phones and computer screens. Seeing an opportunity, the sorcerer Sogan Kenzaki starts infecting words with the Nesta Virus, which brings them to life and turns them into monsters called MJBK (Menace of Japanese with Biological Kinetic energy). To counter this attack against humanity, an organization known as DEAVA (Division of EArth Verbalism Ability) assembles a group of youths with the ability of "Verbalism". They have to pilot the vector machines, which are used to form the mechas dubbed "Aquarions". The one wild card in the situation is the self-dubbed "savior", a young man who is the direct relative of a famous calligrapher, named Akira Kaibuki.

After the termination of the incredibly popular virtual reality MMORPG "The World," a new version of the game—The World R:2—is brought online. On his first day in the game, newcomer Haseo thinks he has made some friends to quest with. However, as if mocking his sentiments, they kill his character just for fun. Luckily, he is saved by a mysterious, one-armed player named Ovan who offers to show him around The World. Alongside Ovan and his cleric friend Shino, Haseo enjoys a wonderful first year in the game. But this peaceful life is shattered when Shino's character is killed by a familiar figure notoriously known as Tri-Edge, whose victims have all fallen into comas in the real world. In a fit of rage, Haseo vows to find the elusive Tri-Edge and kill him. Taking place during Haseo's first year in The World, .hack//Roots explores the friendships Haseo built in the game before Tri-Edge ripped them away. [Written by MAL Rewrite]