Fifteen years after a cataclysmic event known as the Second Impact, the world faces a new threat: monstrous celestial beings called Angels invade Tokyo-3 one by one. Mankind is unable to defend themselves against the Angels despite utilizing their most advanced munitions and military tactics. The only hope for human salvation rests in the hands of NERV, a mysterious organization led by the cold Gendou Ikari. NERV operates giant humanoid robots dubbed Evangelions to combat the Angels with state-of-the-art advanced weaponry and protective barriers known as Absolute Terror Fields. Years after being abandoned by his father, Shinji Ikari, Gendou's 14-year-old son, returns to Tokyo-3. Shinji undergoes a perpetual internal battle against the deeply buried trauma caused by the loss of his mother and the emotional neglect he suffered at the hands of his father. Terrified to open himself up to another, Shinji's life is forever changed upon meeting 29-year-old Misato Katsuragi, a high-ranking NERV officer who shows him a free-spirited maternal kindness he has never experienced. A devastating Angel attack forces Shinji into action as Gendou reveals his true motive for inviting his son back to Tokyo-3: Shinji is the only child capable of efficiently piloting Evangelion Unit-01, a new robot that synchronizes with his biometrics. Despite the brutal psychological trauma brought about by piloting an Evangelion, Shinji defends Tokyo-3 against the angelic threat, oblivious to his father's dark machinations.

Simon and Kamina were born and raised in a deep, underground village, hidden from the fabled surface. Kamina is a free-spirited loose cannon bent on making a name for himself, while Simon is a timid young boy with no real aspirations. One day while excavating the earth, Simon stumbles upon a mysterious object that turns out to be the ignition key to an ancient artifact of war, which the duo dubs Lagann. Using their new weapon, Simon and Kamina fend off a surprise attack from the surface with the help of Yoko Littner, a hot-blooded redhead wielding a massive gun who wanders the world above. In the aftermath of the battle, the sky is now in plain view, prompting Simon and Kamina to set off on a journey alongside Yoko to explore the wastelands of the surface. Soon, they join the fight against the Beastmen, humanoid creatures that terrorize the remnants of humanity in powerful robots called Gunmen. Although they face some challenges and setbacks, the trio bravely fights these new enemies alongside other survivors to reclaim the surface, while slowly unraveling a galaxy-sized mystery.

The Abyss—a gaping chasm stretching down into the depths of the earth, filled with mysterious creatures and relics from a time long past. How did it come to be? What lies at the bottom? Countless brave individuals, known as Divers, have sought to solve these mysteries of the Abyss, fearlessly descending into its darkest realms. The best and bravest of the Divers, the White Whistles, are hailed as legends by those who remain on the surface. Riko, daughter of the missing White Whistle Lyza the Annihilator, aspires to become like her mother and explore the furthest reaches of the Abyss. However, just a novice Red Whistle herself, she is only permitted to roam its most upper layer. Even so, Riko has a chance encounter with a mysterious robot with the appearance of an ordinary young boy. She comes to name him Reg, and he has no recollection of the events preceding his discovery. Certain that the technology to create Reg must come from deep within the Abyss, the two decide to venture forth into the chasm to recover his memories and see the bottom of the great pit with their own eyes. However, they know not of the harsh reality that is the true existence of the Abyss.

Madoka Kaname and Sayaka Miki are regular middle school girls with regular lives, but all that changes when they encounter Kyuubey, a cat-like magical familiar, and Homura Akemi, the new transfer student. Kyuubey offers them a proposition: he will grant any one of their wishes and in exchange, they will each become a magical girl, gaining enough power to fulfill their dreams. However, Homura Akemi, a magical girl herself, urges them not to accept the offer, stating that everything is not what it seems. A story of hope, despair, and friendship, Mahou Shoujo Madoka★Magica deals with the difficulties of being a magical girl and the price one has to pay to make a dream come true.