The brain is one of the ultimate power and complicated operating systems work as a united and integrated area. Nevertheless, Islamic education study focused solely on logical, rational, and empirical brain processes. Besides, the brain also has the power of intuitive thinking whereas current findings show that intuition in the form of holistic can be superior for some reasons. In fact, people with this capability develop and retain their intuitive brain as important roles in strategic making decisions. Unfortunately, the typical type for both rational and intuitive brain has been separated and splitted personality in Islamic education study. Consequently, a logical person would be highly appreciated than an intuitive person. In this study, the researchers analyzed the rational and intuitive brain based on scientific models qualitative way, in the form of literacy research. The research results showed that the transmutation from rational to the intuitive brain through the point of fatigue to the Higher Order Thinking (C4-C6), SOLO Taxonomy, and Marzano's Taxonomy.