When an author break's their world's own rules or has a character make an obviously irrational choice to drive the plot, it is annoys the reader and is considered poor writing. This is true of all writing, regardless of whether the author considers it rational or not. Good sci fi and fantasy often involves the characters deconstructing their world's rules and using those character's unique insight into the world to somehow solve the plot. Brandon Sanderson -- who writes epic fantasy that would never be considered "rational fiction" -- is famously good at this.
That being said, I have grown tired of rehashed old tropes and am glad that a new spin these is emerging. Hopefully some fresh work will come from it.