Well basically the fact that Shinji and his magically parachuted in (literally) perfect in every single way female saviour waifu Mari get to live in 21st century Earth as a traditional husband-wife/boyfriend-girlfriend working couple is the furthest fucking thing from a happy ending for such an otherwise rich and substantive story, in metropolitan Japan of all places too. I seriously hope you see how this is fucked up if you think about it for more than 2 seconds. The fact that you blame an "inferior self" for being in a "constant state of misery" within the context of the story is quite telling, and is exactly the sort of neoliberal soy bullshit that is peddled in the reshills. I disagree with your pop psychological moralistic framing of suffering. The original story is a more honest holistic version of the vagaries of misery within modernity.

And yes Evangelion isnt supposed to be taken as a moralistic tale that we apply to our own lives like Aseop's Christian good boy fables, but on the other hand the rebuilds tried to make it exactly that. It took the original series in all of its sublime thrilling cathartic messy wonder and winnowed the message down to some corporate friendly neoliberal fable about becoming the ubermenschen capitalist salaryman drone with a waifu and that being the apex of human self actualization. Its easier to imagine the end of the world than the end of capitalism. Funny how there were corporations with private armies existing after the apocalypse in the reshills, and this is used to provide more moralistic messaging and seen as a good thing (ie. misato and kaji's son being a good child laborer in the face of adversity etc.).

The whole point of the original show is that there was literally no fucking "point" or "moral", thematically and emotionally, its almost exactly like Bohemian Rhapsody, a cathartic telling of a story with what I strongly believe is a happy ending. Yes the world ended, but from its ashes an infinitude of possibility can arise, because now humans can choose whether they want to stay in blissful communion or brave the dangers and opportunities of a world where all the old social orders have been eradicated.