This study explains "Integrated Science," one of the super-science high school studies, to promote argumentation skills and evaluate the implementation of the results. Arguing about scientific issues and researching 10th-year students’ reactions, in which 197 in 2019 and 201 in 2020 participated (398 pupils in all), the pro and cons were as follows. First, students realized the importance of argumentation to understand scientific knowledge and its importance when researching science. Second, argumentation skills would be useful when tackling social and global issues. However, pupils were aware of some difficulties in explaining the rebuttal and the backing as Toulmin’s Argument Pattern. Based on these results, the relation between “independent, interactive and deep learning” as advocated in the course of study and argumentation in the lesson are discussed, and the perspective on science education is reviewed.