A comparative analysis of cryptosporidiosis detected among children with diarrhea, aged six to less than twelve years old, was carried out in rural and urban locations in and around Alexandria. A total of 300 stool samples were concentrated by formol ether technique then examined by modified Ziehl Neelsen stain. Out of 150 specimens tested from the rural location, the overall percentage of cryptosporidiosis was 23.3% and under urban settings, the positivity rate was 10.0% [ꭓ²=9.600, p < 0.05]. Stepwise logistic regression analysis indicated that children using public taps in rural areas had 15.54 [Confidence interval [CI] = 5.13-47.04] times the risk of acquiring the infection than those who had taps inside their houses and children living in extended families had 7.49 [CI=2.38-23.57] times the risk of infection than those living in nuclear families. In the urban setting, children who used zeir and metallic containers had 9.54 [CI=1.32-69.10] and 7.94 [CI=2.13-29.52] times the risk, respectively, than those who used plastic containers and children whose mothers were illiterate or read and write had 8.91 [CI=1.68-47.39] times the risk of infection compared to those whose mothers had a secondary or university education. From each community, thirty stored drinking water samples were collected randomly from houses of study sample. 13.3% and 6.7% of samples from the rural and urban communities, respectively, were Cryptosporidium oocysts positive. It was concluded that water related risks were significantly associated with cryptosporidiosis in both.