ABSTRACTGenetic correlations have been reported between chronotype and both autism (AUT) and schizophrenia (SCZ), as well as between insomnia and attention‐deficit/hyperactivity disorder (ADHD), bipolar disorder (BP), schizophrenia (SCZ) and major depression (MDD). Our study aimed to investigate these shared genetic variations using genome‐wide and pathway‐based polygenic score analyses. We computed polygenic scores using summary statistics from genome‐wide association studies (GWAS) of ADHD (N = 225,534), AUT (N = 46,350), BP (N = 353,899), MDD (N = 500,199) and SCZ (N = 160,779). We tested their performance in predicting chronotype (N = 409,630) and insomnia (N = 239,918) status of UK Biobank participants. For pathway‐based polygenic scores, we restricted genetic variation to SNPs that mapped to genes within 1377 Reactome pathways. Genome‐wide polygenic scores for AUT, BP, MDD and SCZ were associated with an evening chronotype (p < 2.2 × 10−16, p = 4.8 × 10−3, p = 8.07 × 10−4 and p < 2.2 × 10−16, respectively). Polygenic scores for ADHD, AUT, BP, MDD SCZ were associated with insomnia (p < 2.2 × 10−16, p = 2.93 × 10−3, p = 2.9 × 10−7, p < 2.2 × 10−16 and p = 8.86 × 10−3, respectively). While pathway‐based polygenic score analysis identified the KEAP1‐NRF2 (p = 1.29 × 10−8) and mRNA Splicing‐Minor Pathways (p = 1.52 × 10−8) as enriched for genetic variation overlapping between chronotype and BP, the majority of tested pathways yielded null findings, suggesting that specific shared genetic mechanisms between sleep‐related phenotypes and neurodevelopmental/psychiatric conditions (NDPC) may be limited to a subset of pathways. Colocalisation analysis identified BP‐associated SNPs in CUL3 and SF3B1 as being linked to changes in their expression. Our results strengthen evidence for shared genetic variation between NDPC and sleep‐related phenotypes. We identify the KEAP1‐NRF2 and mRNA Splicing‐Minor Pathways as potentially mediating the disrupted circadian rhythm phenotype of BP.