Not sure if you’re referencing some other media, or any of the Eva movies that aren’t canonically linked to the show, but in the show
spoiler
NERV triggers Instrumentality, which, without much explanation, merges all human consciousnesses into 1 hive mind consciousness which may or may not have something to do with Rei being Shinji’s mom, and may or may not have to do with Evas being living creatures borne of Lilith, and somehow eliminates the Angel threat. Shinji’s abandonment complex is neatly resolved by him realizing that the military people forcing him to fight were right all along and that being in the military is awesome if you aren’t afraid to be outgoing.
Not sure if you’re referencing some other media, or any of the Eva movies that aren’t canonically linked to the show, but in the show
spoiler
NERV triggers Instrumentality, which, without much explanation, merges all human consciousnesses into 1 hive mind consciousness which may or may not have something to do with Rei being Shinji’s mom, and may or may not have to do with Evas being living creatures borne of Lilith, and somehow eliminates the Angel threat. Shinji’s abandonment complex is neatly resolved by him realizing that the military people forcing him to fight were right all along and that being in the military is awesome if you aren’t afraid to be outgoing.