The Brain-Based Teaching Approach is a strategy that implements methods from a brain-based learning (BBL) model. This approach was designed to be compatible with the inclinations and optimal functions of the individual brain to ensure that students can learn effectively. The module uses the Brain-Based Teaching Approach integrated with GeoGebra Software (B-Geo Module) to help students' conceptual understanding of the topic of differentiation. Therefore, this study aims to explore the possible effects of the Brain-Based Teaching Approach with the integration of GeoGebra Software on conceptual understanding of the topic of differentiation in rural secondary schools in Malaysia. This study used a quasi-design of pre-test and post-test experiments involving 118 form 4 students from rural secondary schools. The researchers used cluster sampling techniques for school selection and intact group for sample selection. The school selection was divided into two groups, namely, the control group using conventional information and communication technology (ICT) modules and the experimental group using the B-Geo Module. The instrument used was the Conceptual Understanding Test of Differentiation. The results of the data analysis show that the conceptual understanding of the topic of differentiation amongst rural secondary school students increased when using the Brain-Based Teaching Approach with the integration of GeoGebra Software.