Wasn't that one the series writer working out his own issues through the narrative?
Once I learned that the show's creator had a mental breakdown near the end of the show, looking at him as Shinji Ikari, it made a lot of sense in that light.
If there was something else going on, or something I missed, please enlighten me.
There's also Perfect Blue, based on the novel.
The end of the first run of Berserk was also on that level.