The purpose of this study was to determine if there was a gender-based difference in starting incomes paid to new graduate physician assistants. Data obtained from the American Academy of Physician Assistants (AAPA) Division of Data Services and Statistics from 1998 through 2006, utilizing the Annual AAPA Physician Assistant Census and the Annual AAPA New PA Student Census, were analyzed using SPSS at an alpha level 0.05. A statistically significant difference was found between the incomes of male and female new graduates utilizing the t test for independent samples in each survey year and all years combined. In addition to gender, over 150 independent variables were evaluated by backward regression analysis. Gender remained statistically significant in all models of each year and all years combined. The results of the study indicate that female new graduate physician assistants received a lower income than their male counterparts, even when other confounders were considered.