That's not what I meant by execution. I mean, how do you execute the narrative and script as written (Clark lets his father die to honor his wishes) better than what Snyder achieved in Man of Steel? If the only way to execute the scene better is to change the scene's plot and purpose, then that's a script problem rather than an execution problem.
But to address your concerns, I would agree with your assessment if the film actually showed that Clark learned that particularly poor lesson from his father's sacrifice. After Jonathan died, Clark didn't let people die. Clark continued to save people, and he even earned a reputation as a guardian angel. As Lois said to Clark at his father's grave right before he told her the story about the tornado, "The only way you could disappear is to stop helping people altogether, and I sense that's not an option for you."
When the world needed Clark to come forward, to reveal he was an alien, Clark surrendered to the government and to Zod. So whatever lesson you seem to believe Jonathan's death taught Clark, it didn't take. This Clark -- this Superman -- charted his own path. Shaping your own destiny was at the heart of Man of Steel. Krypton was destroyed and its people were corrupted by a system of genetic determinism that robbed individuals of free will. Clark was not a carbon copy of what either of his fathers wanted, in the end. He became his own person and his own Superman.