Specialty Hospital Jacksonville accepts patients with a wide variety of infections. The hospital provides a program of responsible antibiotic treatment, managed by physicians specializing in infectious disease. The Infectious Disease Program often collaborates with the wound and pulmonary programs to optimize patient recovery. In-house pharmacists are also active in monitoring antibiotic therapy.

In addition to management by the Infectious Disease specialists, another component of the program is Infection Control, as is found in other hospitals. Dedicated Infection Control nursing staff closely monitor all patients, regularly survey the hospital and all work areas, and provide guidelines, education and recommendations for new products and strategies to reduce the risk of infection.