The current study uncovered neurodevelopmental patterns of brain connectivity in adolescents and young adults who did not have a clinical diagnosis of SCZ (or BiP, MDD) but were at varying polygenic liability to SCZ. We also demonstrated important sex and developmental differences in these brain connectivity patterns. This is the first study to our knowledge that has linked neuropsychiatric PRS to developmental trajectories of brain connectivity. The most notable strength of this study includes the large genetic sample of males and females assessed with repeated measures of connectivity throughout adolescence and young adulthood—a key neurodevelopmental period. However, we note that the power to detect significant associations with EEG coherence trajectories was impacted by the discovery GWAS sample sizes, and the disorder-specific genetic architecture; that is, SCZ and BiP have greater heritability than MDD and relatedly the discovery sample sizes for SCZ GWAS are greater than sample sizes for BiP and MDD. In addition, an important limitation of the current study is that only EA individuals were included due to the majority EA composition of these discovery GWAS, as cross-ancestry predictions