Background and objectives Pubertal timing is a key life history trait with long-term health consequences in both sexes. Evolutionary theory has guided extensive research on developmental influences, in particular growing up without a father, on earlier menarche. Far less is known whether a similar relationship exists for boys, especially beyond western contexts. We used longitudinal data from the nationally representative sample of Korean adolescents, which provided us with a unique opportunity for studying male puberty using a hitherto underutilized biomarker: age at first nocturnal ejaculation. Methodology We pre-registered and tested a prediction that growing up in father-absent households is associated with earlier puberty in both sexes. Large sample size (>6000) allowed testing the effect of father absence, which remains relatively uncommon in Korea, while adjusting for potential confounders using Cox proportional-hazard models. Results Self-reported age at first nocturnal ejaculation was on average 13.8 years, falling within the range known from other societies. Unlike previous findings mostly for white girls, we did not find evidence that Korean girls in father-absent households had a younger age at menarche. Boys in father-absent households reported having their first nocturnal ejaculation 3 months earlier on average, and the difference was evident before age 14. Conclusion and implications The association between father absence and pubertal timing appears sex- and age-dependent, and these differences may further interact with cultural norms regarding gender roles. Our study also highlights the utility of the recalled age of first ejaculation for male puberty research, which has lagged in both evolutionary biology and medicine. Lay Summary Previous studies, mostly from Western societies, suggest earlier menarche in girls not living with father. We did not find similar evidence for Korean girls. However, Korean boys who did not reside with father reported to have experienced the first nocturnal ejaculation at younger age. This study highlights the need to consider both sexes and across cultures to better understand the effects of early-life conditions, such as father absence, on reproductive maturation.