The present invention provides solutions to many of the problems face by hospitalist medicine providers by supporting the ability to manage patient workflow, improve physician communication, integrate with hospital information systems, identify and document accurate diagnosis codes and capture professional fee charges. The system and method of the present invention enforces discipline in the clinical decision making process by ensuring proper and specific diagnoses and documentation thereof. This system supports the diagnosis, reports patient progress, enhances continuity of care through enhanced communication and notification throughout the treatment episode with all clinical and operational providers, automates core measure compliance documentation and ensure proper notification of any program specific risk management initiatives.