Episode 17:
• Evangelion Unit-04 is activated at a branch of NERV in the USA, but something goes terribly wrong, and the Eva, the facility and all its personnel are wiped out.
• After that tragedy, our guys at NERV in Japan are given Unit-03 to activate due to their experience. The Unit is transported from the US by air.
• Shinji's friend Tōji is chosen to be the test pilot.
Episode 18:
• The activation of the new Eva Unit-03 also goes terribly wrong as it becomes possessed by the Thirteenth Angel. Shinji is instructed by his father, Gendō, to destroy it using his Unit-01, but he refuses, being unwilling to risk hurting its pilot. Gendō orders that control of Shinji's Eva be immediately handed over to the onboard autopilot system.
• The autopilot is brutally efficient at destroying its target, finishing up by crushing the Entry Plug with Tōji still inside it. Tōji is very badly injured, losing his lower left leg.
Episode 19:
• Devastated by Tōji's injuries and upset by Gendō's behaviour, Shinji quits as Eva Unit-01's pilot and leaves NERV. The Fourteenth Angel attacks.
• Shinji reluctantly returns upon learning that if an Angel were to be able to reach the white giant "Adam" hidden deep below NERV HQ, it would trigger an apocalyptic event foretold as "Third Impact".
• Shinji is able to defeat the Angel, but only after his Eva again goes berserk. The Eva, roaring like a beast, devours the Angel's remains, including its so-called S² Engine, which is its limitless source of power.
Episode 20:
• It turns out that Shinji's victory against the Fourteenth Angel came at a high cost: after he achieved an extraordinarily high synchronisation rate with the Eva of 400 percent, he was actually absorbed into the Entry Plug.
• NERV scientist Ritsuko comes up with a complex plan to return Shinji to physical form, but it will take an entire month to execute.
• During the time that Shinji's consciousness is bonded with the Eva, he feels his mother's presence within.
• Ritsuko's plan to recover Shinji fails, but he is somehow able to return to the world of the living through his own will.
Episode 21:
• This is partly a flashback episode giving details of the formation of NERV as an organisation, of Rei's background, and of the world-changing event known as Second Impact.
• Back in the present day, Misato's ex-lover Kaji, outed as a triple-agent, is shot dead by an unknown assailant.
Episode 22:
• The Fifteenth Angel attacks from low orbit around Earth.
• Eva Unit-01 remains in a suspended state owing to its dangerous condition, and an increasingly agitated Asuka is no longer able to synchronise with her Unit-02, so Rei is sent out in Unit-00 to eliminate the Angel.
• Rei is ordered to retrieve the Spear of Longinus that is embedded in the chest of the white giant, "Adam", and hurl it like a javelin to pierce the Angel's defensive AT Field and destroy it. The plan works, but the Spear is pulled into lunar orbit and is irretrievably lost.
Episode 23:
• Gendō is ordered to explain to his superiors at SEELE why he allowed the apparently invaluable Spear of Longinus to be lost.
• The Sixteenth Angel attacks.
• Rei uses a desperate tactic to destroy the Angel, using Unit-00's self-destruct function at close range. The blast is enormous, and she surely could not have survived. Shinji is left numb, confiding in Misato that "The tears won't come."
• Puzzlingly, however, Rei
has somehow apparently survived the blast. But...
• The truth is later revealed: "Rei" is actually a series of clones. When one dies, another is brought into use.
• In an act of personal vengeance against Gendō, Ritsuko destroys the clones. For her act of treason, she is confined in a cell at NERV HQ.
Episode 24:
• Left lost and confused about the revelation with Rei, Shinji ponders what he is supposed to do now. He meets an enigmatic boy of around his age called Kaworu Nagisa, who has apparently been called in as a replacement Eva pilot for Asuka.
• Despondent that she has become no longer able to operate her Eva Unit-02, Asuka's mental state deteriorates to the point that she becomes unresponsive. She is hospitalised within the NERV medical facility.
• With Kaworu taking the lead and making the moves, he and Shinji strike up a kind of friendship. Key scene:
• Unfortunately, Kaworu turns out to be the Seventeenth and final Angel in human form, sent by SEELE. He reaches the white giant hidden deep below NERV headquarters, but it is in fact not "Adam" at all and is instead something called "Lilith". With Kaworu now trapped and in order to preserve humankind, Shinji makes the hard decision to kill his new friend, crushing him within the hand of Eva Unit-01. Shinji's mental state is brought to a new low, and we head in to the story's conclusion as told in
The End of Evangelion.