In this paper, we analyse the gender differences between the educational performance of 15-year-old children of migrants from specific regions of origin countries living in different destination countries with the Programme for International Student Assessment (PISA) 2009 wave. We study whether this gender difference of migrant pupils deviates from the gender difference between the native pupils in their destination country. We analyse the educational performance of 16,612 daughters and 16,804 sons of migrants in destination countries across Asia, Europe, Latin America, and Oceania. We distinguish 62 origin countries and 12 origin areas in 30 destination countries. Female migrant pupils have both higher reading and math scores than comparable male migrant pupils, and these gender differences among migrant pupils are larger than among comparable native pupils. Parental socioeconomic background has an equal effect on the educational performance of daughters of migrants and on that of sons of migrants. The variation in educational performance by region of origin is, however, not clearly related to the poverty or traditionalism of regions.