A lot of people seem to recall Jonathan on Smallville as this noble figure, and I think that's mostly because of Schneider's terrific performance. Smallville Pa was a dick: he laid the seeds for Clark's self-loathing of his alien nature that would psychologically cripple him for years, and straight-up was responsible for pushing Lex away from Clark back into the arms of his super-evil father, putting him on the path of becoming a tyrant and mass-murderer. He wasn't the paragon that gave the world its greatest hero, he was the self-righteous, pride-driven, spiteful judgmental ass who delayed said heroes ascendancy and guaranteed the existence of its greatest villain.
I can't entirely argue against that in context, but isn't unconditionally trusting people and putting their lives over his own self-interest a huge part of Superman's deal? Even the morality aside of Jonathan teaching his son that aside, even within the movie that makes him someone who teaches the narratively wrong lesson whose sole purpose is to hold Clark back from his destiny--unless you agree that it wasn't "time" for Superman to reveal himself until everyone on Earth would die if he didn't.
How does it teach that lesson at all? The whole "you can't save everyone=it's not worth bothering to save anyone" quandary is so played out and shallow, which is why I think its used much less these days.