Islamic boarding school research is one of the essential factors in dealing with changing times. This problem is caused by the existence of management in Islamic boarding schools, which tends to be traditional and monotonous in religious-centric texts, without regard to aspects of adaptive conceptual and technical abilities. This study aims to reveal the role of spiritual leadership and entrepreneurial innovation in building organizational resilience. In addition, this study also highlights the role of entrepreneurial innovation as a mediating variable. A total of 130 participants were involved in this study, including leaders of Islamic boarding schools, teachers, students, and parents. After distributing 130 questionnaires to the participants, we analyzed them using the Partial least square-structural equation modeling (PLS-SEM) method. Unlike the hypothesis, this study found no significant relationship between spiritual leadership and resilience in Islamic boarding schools. However, spiritual leadership influences entrepreneurial innovation (Yang et al., 2021). Entrepreneurial innovation encourages organizational resilience (YahiaMarzouk & Jin, 2022). In addition, entrepreneurial innovation perfectly mediates the effect of spiritual leadership on resilience in Islamic boarding schools.