Research has shown that gender differences in educational achievement emerge in the early years of school (Cobb-Clark & Moschion, 2017) and can persist into adulthood (Anderson, 2008). There is also a growing body of evidence suggesting that social-emotional skills observed in early childhood affect academic performance and labor market outcomes in later years (Cunha & Heckman, 2008; Cunha, Heckman, & Schennach, 2010). As a result, there is considerable interest in understanding the extent to which gender gaps exist in cognitive and social-emotional skills in early years of childhood, and what factors may explain these gender gaps (Garcia, Heckman, & Ziff, 2017). This paper investigates gender differences in cognitive and social-emotional skills among children in the first few grades of primary school in a developing country. We use cross-sectional, nationally representative data of rural Indonesia to answer two research questions. First, how large are the gender gaps in cognitive and social-emotional skills in the early years? Second, to what extent do gender differences in early schooling and parenting practices explain these gender gaps? Our paper contributes to developmental science by studying early childhood gender gaps in a developing country setting. To date, research from developing countries on this topic has been sparse