Introduction Parental preferences of alternative immunization sites for adolescents must be evaluated to determine optimal delivery strategies. Methods Analyses were performed on data from middle-school parent questionnaires in low income areas. Results 1838 questionnaires were returned; 86.5% of the participants were Hispanic, 65% spoke primarily Spanish at home. Among those with a medical home, 32% had the last immunization at an alternative location. When checking all that apply, 65% of parents selected the medical home as a desirable location for immunization; 41% selected a school-based program. Conclusions Despite lack of exposure to school-based immunization programs, school-based programs are a desirable immunization site among middle-school parents.