Ok, first of all, we should not refer to this girl as Rei, but instead, Rei's . Because Rei Ayanami is a clone, of Yui Ikari, Shinji's mother . This explains why Rei and Gendou are so close, because Gendou wanted Yui back, and so made Rei to take her place . Their are in actual fact, three Rei Ayanami's, the first, was killed by Ritsuko Akagi's mother, in a fit or rage, the second was killed during the 16th angels attack, and the third still remains alive .

Her room, her house, what ever you want to call it, is an exact copy of the genetics lab where she was made, the beaker full of water, the table, the bed, all faded parts of her memory . The dummy plug system, is an exact replica of Rei Ayanami's mind, she was cloned about 50 times, and all these clones, placed in dummy plugs .

Rei is so mixed up, because she does not have a past that she is aware of, that she cannot even figure herself out . She does not fear, nor have a want to interact with others, she is quiet because she does not think about having friends, or talking at all . She speaks when spoken too and follows orders without question because she knows no other way of surviving . If she were to quit the program, she would be cloned once more, and used again .

Rei never smiles, because she has no reason too, only when the 16th angel attacked her mind, did she realize that her actions of being quiet and not interacting with anyone were not doing her any good . Then, she realized what a friend Shinji was too her, so she sacrificed herself for Shinji's sake, this is when Rei II died . Rei III is all mixed up, she has not got the technical knowledge of her predecessors, so she is lost and confused, but somehow she knows that she is the third one .

Alot of Rei Ayanami's story is yet untold, but I will update this page as new information comes to me .