Purpose: The purpose of this study is to investigate the method and logic of research in the "comprehensive system of Islamic health" according to religious sources. Materials and Methods: The present study was conducted using a descriptive-analytical method. The research method in the current health system was compared with the "comprehensive Islamic health system". Findings: Health is a multifaceted subject, ie it can be studied in two domains of medical sciences and religious sciences. So we need interdisciplinary studies to pinpoint the multiple-fold problem of "health." The method and logic of interdisciplinary research accepted in the "Comprehensive Islamic Health System" is the application of a new method of inference. Conclusion: So, contrary to the common experiences in which trial and error is done to check the correctness of a hypothesis, in the interpretation of verses and hadiths, accuracy and signification are determined by ijtihad method and based on Islamic epistemology.