In Central America there is an on-going and very stimulating integration process since many years, which has been closely followed by the AEBR through different partnerships, especially the Secretariat General of the SICA, main promoter of several sound cross-border initiatives, being the most suitable partner to strengthen these processes at the supra-national level in the region. On the other hand, border municipalities in Central American countries are increasingly demanding instruments for Cross-Border Cooperation (CBC), being a growing field under permanent development. The purpose of this study was the development of SWOT analyses in three selected cross-border areas in Central America showing a high potential for CBC but where sustainable and systematic territorial cooperation has not yet been achieved. The SWOT analyses provided the basis to elaborate a road map for CBC in the territories under study, including main results, outcomes, lessons learned, recommendations and conclusions.