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My answer to this is quite simple: Show proof that they're wrong in-story. Doesn't have to be blatant, doesn't have to be screamed, but if you have a reader who is detail-oriented enough to pick up...
Answer
#3: Attribution notice added
Source: https://writers.stackexchange.com/a/45810 License name: CC BY-SA 3.0 License URL: https://creativecommons.org/licenses/by-sa/3.0/
#2: Initial revision
My answer to this is quite simple: Show proof that they're wrong in-story. Doesn't have to be blatant, doesn't have to be screamed, but if you have a reader who is detail-oriented enough to pick up the flaws in a character's logic, they'll be detail-oriented enough to pick up on the tiny consequences that foreshadow the big one.