The study was conducted to investigate the effect of breed on fertility, hatchability and embryo mortality of Alabio, Mojosari and Peking x White Mojosari crossbred duck eggs. A total 22,160 eggs were selected and incubated for 28 days with the same procedure. All the data was examined for fertility, hatchability and embryo mortality during incubation and analyzed by ANOVA for a complete randomized design, using Duncan procedure of SAS. The result of the study revealed that fertility of three breeds showed a significant difference (P≤0.05) but did not on hatchability and total embryo mortality during incubation (P>0.05). Fertility of the three breeds was quite high with values above 90%, on the contrary, the hatchability of eggs was recorded low, with the value between 50-55% due to high embryo mortality during incubation with the value between 40-43%. The highest embryo mortality among the incubation periods was found at 26-28 day of incubation, and then followed by embryonic mortality at 16-25 d, 0-5 d, and 6-15 d, respectively. From the present study, it can be concluded that breed had significant effect on fertility but didn't on hatchability and embryo mortality of Alabio, Mojosari and Peking x White Mojosari crossbred duck eggs.