Theory and Analysis:Rei's Ghostly Appearances and Quantum Mechanics

Shinji sees a "vision" of Rei standing in the road wearing her school uniform soon after he is introduced, right before Misato arrives in her car to pick him up. Obviously this couldn't have been the "real" Rei simply physically traveling from Shinji's position to Tokyo-3, as Rei has been seriously injured and is at Nerv HQ (wearing her plug suit) under constant medical surveillance. This shot effectively forms half of two "bookends" for the series: when Shinji comes to Tokyo-3 here he sees a vision of Rei wearing her school uniform, and in the penultimate scene of The End of Evangelion, Shinji sees a vision of Rei wearing her school uniform standing over the Sea of LCL after Instrumentality (and after the Rei/Adam/Lilith hyper-being has died, or perhaps as it was dying) which then vanishes. What "really happened" in this appearance of Rei?

• • It seems almost assured that Shinji didn't just "hallucinate" it, as he had never met Rei before and thus had no way of knowing what she looks like. In Episode 02, for instance, when Shinji is thinking about Rei and his Father in the bath, one of the things he thinks about is seeing Rei on the street in the previous episode, indicating this wasn't a hallucination but reality.
  • During several episodes of the series (Episode 16, Episode 20) Shinji has internal mind-trips in which he appears to be talking to Rei. In these scenes it is unlikely that Shinji is simply hallucinating (talking to his own subconscious feelings, etc.) because in Episode 19, Toji has an almost identical vision of a Rei/Shinji conversation, and these scenes bear too close a resemblance to the "train" scene in EOE in the earliest stages of Instrumentality to be coincidence. Another possibility is that"Rei" is an Angel or Eva Unit 01 trying to contact his mind using the image of Rei, etc. Yet another possibility is that in these instances Rei actually reached out and contacted Shinji's mind, and the "Rei" in his internal visions in Episodes 16 and 20 actually was Rei, contacting him. It's unclear exactly what was happening in these conversations, but there are clues that suggest an explanation for Rei's appearance to Shinji in ep. 01.
    • In ep. 23, when Ritsuko shows Shinji and Misato the room where Rei was born, the words "Top", "Bottom", and "Strangeness" are written on the wall. These are terms from Quantum Mechanics, and as it is emphasized that this was Rei's room, they must have been put there as a clue as to Rei's nature. Quantum Mechanics describes the behavior of subatomic particles. The basic subatomic particle, so far as we know, is the quark. Top and bottom are two of the six kinds of quarks known to exist. The reason that this is relevant is that quarks behave in ways that would be impossible in normal physics. For instance, a single quark can be in more than one place at a time. As we see in EOE, after absorbing Adam and re-joining with Lilith, Rei can be everywhere at once, collecting the souls of all mankind. Another property of quarks is that time has no meaning for them. At the sub atomic level, effects can happen before their causes, and particles can arrive at their destinations before starting on their journeys.

• • In light of all this, it seems likely that the Rei Shinji sees in Ep. 01, in his internal mind-trips during various episodes, and in Ep.26' is Rei III, who has transcended time after gaining god-like powers as Lilith at the end of the story.