The automated vaccination system enables an operator to effectively vaccinate large numbers of poultry by motivating the poultry to congregate, and then spraying a vaccination solution in the area of the congregated poultry. In the preferred embodiment, drinking water is withheld from the poultry. The drinking water is then restored so that the poultry congregate around the drinking line. As the poultry gather around the drinking line, a spray bar sprays vaccination solution around the poultry so that the poultry inhale the vaccination solution and are successfully vaccinated.