Natural Protected Areas (NPAs) are the main biodiversity conservation strategy in Mexico. Generally, NPAs are established on the territories of indigenous and rural groups driving important changes in their local resource management practices. In this paper we study the case of Otoch Ma’ax Yetel Kooh , an NPA in the Yucatan Peninsula, Mexico, that has been studied in a multidisciplinary way for more than twenty years. This reserve and its buffer zone is homeland to Yucatec Mayan communities that until recently used to manage their resources following a multiple use strategy (MUS), which involves local agricultural practices and has been proposed as resilience-enhancing mechanism. However, due to the restrictions imposed by the decree of the reserve and the growth of tourism in the region, some of these communities have started to abandon the MUS and specialize on tourism-related activities. We build a dynamical computational model to explore the effects of some of these changes on the capacity of this NPA to conserve the biodiversity and on the resilience of households to some frequent disturbances in the region. The model, through the incorporation of agent-based and boolean network modelling, explores the interaction between the forest, the monkey population and some productive activities done by the households (milpa agriculture, ecotourism, agriculture, charcoal production). We calibrated the model, explored its sensibility, compared it with empirical data and simulated different management scenarios. Our results suggest that those management strategies that do not exclude traditional activities may be compatible with conservation objectives, supporting previous studies. Also, our results support the hypothesis that the MUS, throughout a balanced integration of traditional and alternative activities, is a mechanism to enhance household resilience in terms of income and food availability, as it reduces variability and increases the resistance to some disturbances. Our study, in addition to highlighting the importance of local management practices for resilience, also illustrates how computational modeling and systems perspective are effective means of integrating and synthesizing information from different sources.