Allozyme data from six spawning sites of walleyes (Stizostedion vitreum vitreum) in western Lake Erie and two in Lake St. Clair demonstrated significant differences between allelic frequencies in fish from the two lakes. In contrast, differences were only slight between walleyes from different spawning sites within each lake. Of 21 presumptive genetic loci assayed electrophoretically, 4 were polymorphic enough to differentiate the populations. Allelic frequencies differentiating the stocks were stable between year classes, sexes, and sample years, showing that fry hatched in a particular area were returning there to spawn. These findings support other evidence for homing in Great Lakes walleyes.