There are health risks associated with wastewater and fecal sludge management and use, but little is known about the magnitude, particularly in rapidly growing urban settings of low- and middle-income countries. We assessed the point-prevalence and risk factors of intestinal parasite infections in people with different exposures to wastewater and fecal sludge in Kampala, Uganda. A cross-sectional survey was carried out in September and October 2013, enrolling 915 adults from five distinct population groups: workers maintaining wastewater facilities; workers managing fecal sludge; urban farmers; slum dwellers at risk of flooding; and slum dwellers without risk of flooding. Stool samples were subjected to the Kato-Katz method and a formalin-ether concentration technique for the diagnosis of helminth and intestinal protozoa infections. A questionnaire was administered to determine self-reported signs and symptoms, and risk factors for intestinal parasite infections. Univariate and multivariate analyses, adjusted for sex, age, education, socioeconomic status, water, sanitation, and hygiene behaviors, were conducted to estimate the risk of infection with intestinal parasites and self-reported health outcomes, stratified by population group. The highest point-prevalence of intestinal parasite infections was found in urban farmers (75.9%), whereas lowest point-prevalence was found in workers managing fecal sludge (35.8%). Hookworm was the predominant helminth species (27.8%). In urban farmers, the prevalence of Trichuris trichiura, Schistosoma mansoni, Ascaris lumbricoides, and Entamoeba histolytica/E. dispar was 15% and above. For all investigated parasites, we found significantly higher odds of infection among urban farmers compared to the other groups (adjusted odds ratios ranging between 1.6 and 12.9). In general, female participants had significantly lower odds of infection with soil-transmitted helminths and S. mansoni compared to males. Higher educational attainment was negatively associated with the risk of intestinal protozoa infections, while socioeconomic status did not emerge as a significant risk factor for any tested health outcome. Urban farmers are particularly vulnerable to infections with soil-transmitted helminths, S. mansoni, and intestinal protozoa. Hence, our findings call for public health protection measures for urban farmers and marginalized communities, going hand-in-hand with integrated sanitation safety planning at city level. Urban wastewater and fecal sludge use is of growing importance all over the world. However, unsafe management and inappropriate use might exacerbate the transmission of infectious diseases, including those caused by intestinal protozoa (e.g., amebiasis and giardiasis) and parasitic worms (e.g., soil-transmitted helminthiasis and schistosomiasis). People living and working in densely populated and rapidly transforming cities in Africa and Asia are especially vulnerable. We conducted a cross-sectional survey and assessed people’s risk of intestinal parasitic infections due to exposure to wastewater and fecal sludge management and use in Kampala, the capital of Uganda. We collected data on the prevalence, intensity, and risk factors of infections with parasitic worms and intestinal protozoa among slum dwellers, urban farmers, and workers maintaining the sanitation system. We found high infection prevalence of Schistosoma mansoni and soil-transmitted helminths in urban farmers and slum dwellers after adjusting for age, sex, and educational attainment. Our data suggest that urban farmers are especially vulnerable to infections with intestinal parasites, which may play an important role in the transmission through contamination of their living and working environments. In view of our results, the control of schistosomiasis and soil-transmitted helminthiasis should be accelerated in Kampala.