So, Eugene is jesus and people don't want jesus to stop bearing their sins so they will kill him again.
Also, not entirely unrelated but what happened with Eugene's seals placed by the reincarnated girl?
Also, also, Something I have been thinking for a while, this story is allergic to letting the protagonist win, what's that? Eugene and his friends successfully evaded the end of the world? It was all part of the Eternal group plan of course, What? They saved the world? They have to die.
Healing life my ass.