The Master of Arts Degree in Environment, Development, and Peace (EDP) provides comprehensive training in issues of sustainable development, environmental governance, natural resource management, and environmental conflict management from both ecological and social perspectives. It encompasses a broad range of subjects and themes, including Food Systems, Water Management, Forestry, Coastal Resources, Climate Change, Urban Ecology, and Social Movements. The program focuses on the human dimensions of the environment-development nexus, highlighting the connections between local perspectives and broader processes at the national, regional and global levels and emphasizing the importance of political, economic structures and inequality in access to resources as key drivers in environmental conflict and global environmental change. The program prepares students for a wide range of careers in both environmental and development policy and programming in the public, private, and non-profit sectors.

The Master of Science Degree in Biology offers two specializations: Molecular Biotechnology and Environmental and Ecological Sciences. The emphasis of these programs is to present an interdisciplinary curriculum focused on scientific reasoning to prepare students for work in the field of Biology dealing with the molecular aspects of biotechnology, ecology or the environmental sciences.

The Master in Data Science offers an academic learning experience in the development of mathematical models to generate information from data, aimed at improving the efficiency and competitiveness of organizations, as well as the quality of life of people.

The Master in Geographic Information Systems seeks to deepen and broaden the studies of Remote Sensing and GIS techniques as tools for the diagnosis and evaluation of the territory and natural resources. On the other hand, it seeks that the participants develop the skills and abilities to interpret and analyze the basic processes involved in the collection and interpretation of territorial data from different sources of remote sensors and GIS. This master's degree will strengthen and expand the team of researchers and technicians of the highest academic level in the country in the area of ​​Geographic Information Systems.

The Faculty of Health Sciences of the Universidad del Istmo and the Institute for Research and Education of Human Genetic and Metabolic Diseases –INVEGEM– have signed a Specific Agreement for Scientific-Technological Collaboration in which they recognize the importance of Education as a strategy that allows strengthening the professional performance skills of those who develop in the different disciplines of the health sciences. The purpose of this Master's is that the participants, upon completion, are able to understand the genetic component of diseases in humans and apply molecular techniques for diagnosis, prognosis, monitoring, and selection of therapy. It is intended that this program have a positive impact at the national and regional level, by promoting the updating of knowledge in human genetics of professionals related to health. It should be noted that currently, education and training in this area at the master's or doctoral level in Guatemala and in the Central American region is scarce, which is why there is a lack of an adequate number of professionals specialized in the area of ​​human genetics.