Maybe what you said is true and academies don't affect traits, but my 2 family members who lived in cities with academies are the 2 best 16 year-olds I have ever had: one had so many traits that I needed to drag down to see them all, and he had the highest command and influence ratings in the entire faction. Another was born as my best governor(best governing traits, and best management when all management boosting ancillaries were given to him).
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