This paper presents how a Geographical Information System (GIS) can be incorporated in an intelligent learning software system for environmental matters. The system is called ALGIS and incorporates the GIS in order to present effectively information about the physical and anthropogenic environment of Greece in a more interactive way. The system can be used at school or complementary at home for school and university students but may be also used by other users for life-long learning. However, different users may have different background knowledge and needs. For this purpose, the system can personalise learning to each individual user. More specifically, in ALGIS the utility of Analytic Hierarchy Process (AHP) is examined for personalising teaching in the context of a tutoring system for geographical and environmental matters with the incorporation of a GIS. The paper focuses on the details for the application of the theory in a way that AHP can be also be incorporated in other similar systems.