Populations of large pelagic sharks are declining worldwide due to overfishing. Determining the overlap between shark populations and fishing activities is important to inform conservation measures. However, for many threatened sharks the whereabouts of particularly vulnerable life-history stages – such as pregnant females and juveniles – are poorly known. Here, we investigated the spatial distribution of size classes, energy transfer and reproductive states of pregnant females of the endangered shortfin mako, Isurus oxyrinchus, using spatially resolved catch data from a Spanish surface longline vessel (1996 − 2009) in the South-east Pacific Ocean. Our results suggest a general eastward gradient of occurrence of pregnant females of thousands of kilometers from western oceanic feeding grounds towards the eastern Pacific, where we observed an aggregation area of small juveniles. Moreover, the potential nursery likely overlapped a longline fishing hotspot, increasing the vulnerability of juveniles from fisheries. Our results suggest that limiting fishing pressure in this area could reduce mortality of early life stages and contribute to the conservation of this endangered shark species.