The only way to keep players from doing something stupid is to Just Keep Talking.
Sadly, there is no way to keep the DM from doing something stupid, although offing one of his favorite NPCs might shut him up for a couple of minutes.
Bethesda felt the need to jam a morality system into Fallout 3, and they blew it. Good and evil make no sense and the moral compass points sideways.
Resident Evil 4
Who is this imbecile and why is he wandering around Europe unsupervised?
The Strange Evolution of OpenGL
Sometimes software is engineered. Sometimes it grows organically. And sometimes it's thrown together seemingly at random over two decades.
The Plot-Driven Door
You know how videogames sometimes do that thing where it's preposterously hard to go through a simple door? This one is really bad.
Dead or Alive 5 Last Round
I'm not surprised a fighting game has an absurd story. I just can't figure out why they bothered with the story at all.