Both of the examples you gave are not counterpoints. They are examples of the exact same issue.

When I played FO4, I couldn't enjoy the building or storylines, because the game tells you that your son is all-important and that you need to rescue him from a world that is certainly going to destroy him. I'd have loved to sit around and carefully build the perfect post-apocalyptic town, but that stupid main quest was hanging over my head, and I'd have been a terrible virtual father if I let myself idly screw around instead of spending every ounce of energy searching for him.

It doesn't matter at all that the asteroid doesn't fall until you get to the spot you need to be, or that your son will never die and never age even if you play the game for 14 years, or that V lives forever because they never show him die in the game. It's an RPG, and it's specifically designed for you to immerse yourself in the game and "become" the character. A fake death timer is in some ways worse than a real one, because it breaks the illusion and reminds you constantly that this is a game.

It's bad storytelling.