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Understanding species‐environment relationships at large spatial scales is required for the prioritization of conservation areas and the preservation of landscape connectivity for large carnivores. This endeavour is challenging for jaguars (Panthera onca), given their elusiveness, and the local nature of most jaguar studies, precluding extrapolation to larger areas. We developed an occupancy model using occurrence data of jaguars across five countries of Central America, collected from camera‐trap studies of 2–12 months' duration, deployed over an area of 14 112 km2 from 2005 to 2018. Our occupancy model showed that habitat use of jaguars increased with primary net productivity and distance to human settlements, and distance to rivers. Detection of the species was related to survey effort and research team identity. Within the jaguar extent of occurrence, 73% was deemed suitable for the species, with 47% of it lying within Jaguar Conservation Units (JCU) and 59% of JCU land being legally protected. Suitable areas were divided into four distinct clusters of continuous habitat shared across country borders. However, large areas of predicted low habitat suitability may constrict connectivity in the region. The reliability of these spatial predictions is indicated by the model validation using an independent dataset (AUC = 0.82; sensitivity = 0.766, specificity = 0.761), and concordance of our results with other studies conducted in the region. Across Central America, we found that human influence has the strongest impact on jaguar habitat use and JCUs are the main reservoirs of habitat. Therefore, conservation actions must focus on preventing habitat loss and mitigating human pressure, particularly within the clusters of continuous areas of high suitability, and on restoring habitat to foster connectivity. The long‐term persistence of jaguars in the region will depend on strong international cooperation that secures jaguar populations and their habitat across Central American borders. [ABSTRACT FROM AUTHOR]