In this study were found urinary tract infection and intestinal parasitism in Embera and Huitoto indigenous children of Florencia (Caquetá, Colombia). Urinalysis and stool analysis were also carried out in adults as contribution from the research to these communities. The laboratory results showed that 4.8 % of the 21 children participating in the study had urinary tract infection and the 78.9 % intestinal parasitism with more than one parasite by individual. Accordingly with these results, the research group suggests the implementation of health promotion and prevention campaigns in order to improve the health level of the ethnics group’s child population.