Gastrointestinal parasites constitute a significant threat to livestock development; causing sickness and, as a result, decreased output and death. The traditional extensive communal grazing system practised by pastoralists increases exposure of cattle to the infective stages of gastrointestinal parasites. Different factors, such as geographical location, management practises, and production systems, may influence the occurrence of the parasites; thus, mitigation efforts should focus on local conditions. The aim of the study was to determine factors associated with the prevalence of gastrointestinal parasites in cattle in Nyamagana district in northern Tanzania. Faecal samples were collected from 323 cattle in the study area for laboratory analysis using simple flotation and sedimentation methods. A structured questionnaire was used to collect information from the farmers on their production systems and management practises. The overall prevalence of gastrointestinal parasites was 36.4%. The prevalence of Fasciola was 37.5%, Strongyles was 25%, Taenia was 20%, Paramphistomum was 12.5%, and Schistosoma was 5%. The likelihood of cattle being infested with gastrointestinal parasites was higher in the outdoor system of cattle production compared to the indoor system (p = 0.049) and in dirty cattle enclosures (p = 0.002). Further, the likelihood of cattle being infested with parasites was lower among native farmers compared to non-native farmers (p < 0.001), where vaccination against diseases was practised (p = 0.032), and extension services were available to the farmers (p = 0.043). To reduce the prevalence of gastrointestinal parasites, a combination of different strategies that focus on improving the immune system of cattle and reducing exposure to infective stages of the parasites is necessary.