Polyembryony is a type of sporophytic apomixis common in citrus species. Previous studies discovered that embryo traits relate to their sexual or asexual origin. Smaller embryos at the micropyle end are considered zygotic embryos, whereas larger embryos are nucellar. Early embryogenesis in the ovule of apomictic citrus promotes the development of nucellar embryos. The chalaza region inhibits the early development of the zygotic and nucellar embryos; thus, both embryos must grow at the micropyle end. Numerous researchers agree that highly polyembryonic cultivars produce nucellar seedlings more often as the zygotic embryos cannot survive field conditions. Thus, the selection of polyembryonic genotypes facilitates clonal propagation. This chapter analyzes the factors that affect polyembryony in citrus.