Introduction: Reviewing hospital performance not only can identify the strengths of that organization but can also improve our understanding of hospital management. This study aimed to analyze the functional aspects of hospital management in selected military hospitals using Weisbord's six-box model. Material and Methods: The present study, which was a descriptive and analytical one, was carried out in 5 selected military hospitals in 2013. Data collection was done using a standardized questionnaire whose validity and reliability had already been confirmed (α =%88). 280 randomly selected employees, determined using Cochran’s formula, took part in this study. Results: The results showed that having a clear organizational structure with a mean of 4.08±0.27 achieved the highest score while having a clear rewarding mechanism with a mean of 2.98±1.25 received the lowest rating in the Weisbord's six-box model. Generally, the functional aspects of management in the studied hospitals were acceptable. Significant relationships were observed between the inter-organizational communication and the organization's rewarding mechanism (p=0.04), the organizational structure index and the rewarding mechanism (p=0.03), and the existing job coordination and having pre-specified organizational goals (p=0.01). Conclusion: The focus of the senior management team on the functional aspects of management in hospitals can improve their performance. Due to the significance and diversity of military hospital performance and missions, the assessment of the organization’s internal environment, present conditions, and performance as well as the identification of its problems and potentials seem to be quite necessary.