There are three species of Neotropical cats whose northernmost distribution reaches the USA-Mexico border region: the jaguar Panthera onca, ocelot Leopardus pardalis and jaguarundi Herpailurus yagouaroundi. To ensure the long-term viability of Neotropical cat populations in this region it is imperative to identify current distribution and status in the northern limits of their range to conserve important populations effectively. The purpose of this study was to construct a blueprint of priority conservation areas for each species in the border region. This was done by (1) compiling reliable sightings for each species from the early 1900s to 2003, (2) conducting field surveys to ascertain species presence, and (3) conducting a geographical information system based habitat mapping workshop in which 29 scientists and conservationists provided information on the distribution and status of each species. Participants were asked to delineate and describe specific areas in the border region where historical and recent sightings of Neotropical cats have occurred, resulting in a compilation of 864 felid sightings of which 283 where reliable and had physical evidence. Twenty-one Cat Conservation Units and seven Cat Conservation Corridors were identified as areas in which to concentrate efforts for protecting felids. Only 8.9% of these Corridors and 1.1% of the Units currently have any protection. An additional 12 Corridors and 12 Units were identified as areas requiring further study.