The structure of a parasite system is formed and its functioning takes place in qualitatively different environments. The aquatic environment serves as a source of new elements and modules, energy, and information for parasite systems. And the parasite systems, for their part, affect the physical and biological parameters of the environment. Many intestinal infections caused by pathogenic microorganisms generally characterized by an acute disease course are related to a water factor. Such are typhus, typhoids, dysentery, cholera, salmonellosis, virus hepatitis, and others. Many parasitic diseases caused by pathogenic intestinal protistae (lambliasis, amebiasis, balantidiasis), blood parasite protistae (malaria), helminthes (opisthorchiasis, fascioliasis, diphyllobothriasis, cercariosis, pseudoamphistomosis) are also closely related to a water factor. Ascaridiasis, hymenolepiasis, trichocephalosis, and echinococcosis have a less close but still self-evident relationship to a water factor. The clbse relationships of many parasitic diseases to a water factor are also determined by the fact that the life cycles of many parasites necessarily include various intermediate hosts and parasite vectors, such as fishes, mollusks, crustaceans, and insects, which are aquatic organisms at some stages of their life. The results of continuous exposure of people to parasitic diseases are quite similar to the suppressive effects of the environment in the ecologically troublesome regions. The most prognostically useful information is formed while mapping by medical and ecological regions, by employing a combination of current mathematical and cartographical methods. The former include cluster analysis, quartering method, informational logical analysis, which are all described in this article and others. Regional mapping using the parasitological criteria should achieve at least two goals: 1) a scientific one that aids in finding causative connections and to prognosticate a situation; 2) a practical one that assists in developing regional programs for disease control and prevention. It is necessary to use the recommendations described in detail in the article in order to have the maximum results during medical and ecological mapping by the regions with a future goal of obtaining useful prognostic information.