With the advance of time comes the need for Eva technology to advance as well, therefore Ritsuko is running a new harmonics test, however, this time the pilots must undergo the test naked to avoid their entry plug suits from interfering with the results. Ritsuko needs the data to create an emergency auto pilot system for the Evas, but this still doesn't change the awkward situation that the pilots find themselves in.

The test starts successfully according to plan, but concern is soon raised when corrosion is detected in the protein wall above the test room. Unwilling to abort the test due to a minor technicality, Ritsuko allows the test to continue, however, this soon turns out to be a mistake when contamination within the test room is suddenly detected. Analysis of the corrosion reveals that it is in fact a living organism, blood type blue; the eleventh Angel, Ireul. Having infiltrated NERV HQ, the Angel starts rapidly expanding contaminating everything within its path, including the Eva simulation test bodies. To this end the pilots' entry plugs are ejected and all three Evas launched to prevent them from being contaminated and taken over by the Angel.

NERV soon discover that the Angel has the ability to evolve at an astounding rate, its defence mechanism is that of achieving total adaptability. To make matters even worse, the Angel's effectively an organic computer and hacks into NERV's computer system with ease, it then goes on to hacking into the MAGI but succeeds only in gaining control of Melchior and partly Balthasar before Ritsuko devises a plan temporarily halting the Angel's progress.

Ritsuko buys NERV around two hours before the Angel continues its infiltration of the MAGI, fortunately Casper, the third MAGI, remains uncontaminated which gives Ritsuko her starting point in defeating the Angel. She plans to hack into the Angel using Casper followed by uploading an auto self-destruct program leading the Angel to an evolutionary dead end. For the plan to succeed, however, NERV must first reprogram Casper in time to carry out the task and Ritsuko must place all her faith in her late mother, creator of the MAGI, and Casper's ability to work faster than the Angel.

Genesis 0:7/Episode 14 - SEELE, Throne Of Souls

This episode commences with a brief recap on most of the Angels encountered to date starting with the third Angel and the first battle of Tokyo-3. The recap also includes excerpts from characters' personal diaries and the manor in which each Angel was destroyed.

Commander Ikari is summoned to the UN committee which is alarmed at the rumoured Angel invasion of NERV and central Dogma. As the incident was not in accordance with the committee's predictions, based on the dead sea scrolls discovered in Antarctica, they are understandably panicked by the rumour that they know to be true, despite Ikari's denial of such events claming that the committee was misinformed. With no real evidence to throw at Ikari, however, the committee drops the issue.

Whilst sitting within the cockpit of Unit 01, Rei experiences several surreal dreamlike ramblings mainly concerned with her existence and purpose in life. The reason for Rei's presence in Unit 01 is due to a series of new tests being carried out by Ritsuko who is experimenting with pilot/Eva compatibility. Rei's test proceeds nicely, however, Shinji's goes horribly wrong for unknown reasons leading to a repeat of Rei's failed first attempt to synchronise with Unit 00. Fortunately this time, however, the pilot isn't harmed physically by a malfunctioning auto ejection system, though Shinji does mentally relive some of Rei's past memories.

Again Shinji awakens in hospital, this time to find himself staring at a now familiar ceiling. With no mental contamination he'll be fine, but he doesn't remember the events which took place during the test. The last time this kind of incident occured it was suspected that the cause was due to mental instability within the pilot, however, this latest incident reveals that the instability came infact from the Eva!