This research is based on understanding the challenges related to the design, development and implementation of a GIS tool for mapping malaria in developing countries and Mozambique in particular. The research investigate the current practices and tools used for monitoring and controlling malaria in the current health information system. Assessing of potentialities and challenges of using GIS in monitoring and coordinating malaria control efforts, and devising strategies that can be used to address challenges associated with using GIS to monitor and control malaria were the specific objectives of the research. The research aimed at exploring GIS and interactively explore spatial data and non-spatial data (malaria routine data) to address malaria problems. The challenges experienced were studied using qualitative research methods that helped to inform both the data collection methods and analysis. To analyse the problems addressed in this work, I drew upon theories and concepts in two areas: Geographic Information System and Information Infrastructure. This work makes contributions to both theoretical and practical domains.