The goals of this study were to investigate the occurrence of Cryptosporidium oocysts and Giardia cysts in main springs of Campos do Jordão, an important tourist city, in Brazil and to gather the largest amount of parasitological data from autochthonous population that live in rural areas of this city. The membrane filtration technique followed by direct immunofluorescence assay was employed for concentration and visualization of waterborne protozoa. In the period between June 2003 and May 2004, the presence of at least one pathogenic protozoa was detected in 25.0% (3/12) of the springs studied, with mean concentrations ranging from 0.2 to 0.3 Cryptosporidium sp. oocysts and 0.07 to 0.1 Giardia sp. cysts/L. The coproparasitological investigation conducted in dwellers from two rural communities from this city revealed that 49.2% (91/185) of people had intestinal parasites. Among pathogenic protozoa, Cryptosporidium was the most prevalent species (8.1%) followed by Giardia duodenalis (5.9%), Entamoeba histolytica/Entamoeba dispar (2.7%), and Blastocystis hominis (2.2%). The most prevalent geohelminths were Ascaris lumbricoides (14.9%) and Trichuris trichiura (9.7%). This study demonstrated the contamination and the distribution of intestinal parasites, especially Cryptosporidium and Giardia species, in different springs of an important tourist city in Brazil, highlighting the need of monitoring natural water sources. The high prevalence of intestinal parasitosis detected in some specific populations of this city may function as a link of transmission of different intestinal parasitosis due to soil and water contamination, contributing to the maintenance of parasite life cycles. Therefore, the inclusion of consistent public health interventions with measures that include the protection of springs, the installation of minimum health infrastructure, and primary education of the population are widely necessary, aiming the control and prevention of parasite infections.