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Cryptosporidium species cause high morbidity and sometimes high mortality rates among cattle, resulting in serious economic threats. This present study is aimed at investigating the presence, prevalence, distribution, and risk factors associated with Cryptosporidium species infection among cattle in Kwara State, Nigeria. To achieve this, 333 apparently healthy cattle were sampled from abattoirs and different cattle herds over a one-year period. Faecal samples were collected and subjected to the formalin-ethyl acetate (formol-ether) sedimentation technique. Sediments from the formol-ether sedimentation method were used for the modified Ziehl-Neelsen staining technique. The Microsoft Excel (2016) spreadsheet and the Statistical Package for the Social Sciences (SPSS, Chicago, Illinois, USA) for Windows version 22.0 were used for the data analysis. Of the cattle sampled, 99 were positive for the enteric protozoan (29.73%; 95% confidence interval (CI) = 25.07–34.85). There was no distinct pattern in the monthly prevalence of Cryptosporidium infection in cattle. Breeds of cattle, physiological status, and seasons were statistically associated with the prevalence of Cryptosporidium species in cattle. There is a need to educate pastoralists on the control and preventive measures of this enteric protozoan to improve the economy of the cattle industry and prevent possible transmission to humans in Kwara State and Nigeria in general.