Flooding is considered to be the most devastating natural disaster worldwide. This research sought to assess the incidence of flooding and its implications on school activities among urban pupils of Ogun state. The research employed descriptive approaches with the use of questionnaires and personal interviews. The study area considered for this survey is Akute community, a border town between Lagos and Ogun states literally in distress of flooding during rainfall. Tiptop Schools Akute and Kingsdale Schools, Akute are the two schools considered for the research. A total 45 questionnaires were distributed among school students in based on the implications of flood on pupils’ activities. The result indicates that the majority of the students (95%) always stay at home whenever there is long rainfall, also 62% of the respondents are always happy during the rainy festival as it indicates students can stay at home for 2-3 days due to flooding, hence primary school students can develop the need for occasion truancy in school even when there is no case of flooding. Hence it was concluded that flooding is a natural disaster that affects every possible human activity in the area with education not being left out, parents and guardians might not see any problem with students staying back at home due to flooding but a continual need to stay at home during academic calendar affects students’ academic performance. It was thereby recommended that electronic learning should be encouraged in both private and government schools to keep pupils up to date whenever flooding is keeping them out of school.