This research is an interactive courseware called “Quranic Verses on The Integration of Naqli and Aqli Knowledge”. This courseware is developed to facilitate users especially among students to fully understand about sciences knowledge in Quran and will expose the miracle of the Quran with interactive ways. The targets of this courseware are for all ages that learn about sciences knowledge in the Quran especially students who are learning about this knowledge, lecturers who are teaching their students on this knowledge, scientist, researcher and others. This courseware consists of Quranic verses and their meanings. This courseware provided 15 categories of knowledge and its meaning in Quran from Surah al-Baqarah to Surah al-Naas. Moreover, this courseware also combines the notes and the verses of Quran that are in audio and interactive images forms which is the most effective tool to attract the user to use this courseware. This courseware is developed by using Adobe Flash Player Cs6 as the main platform and some other software is used to support in developing this project. “Interactive Courseware: Quranic Verses on The Integration of Naqli and Aqli Knowledge” is a courseware that is easy to learn and interactive. We hope that with the development of this courseware, it can assist all people especially the Muslims who would like to learn about this knowledge in understanding the verses of Quran and the science knowledge in Quran in easier way as well as it could be as one of teaching tool for lecturers to teach their students on this knowledge. We also hope with this interactive courseware to be applied, it will expose the miracle of theQuran to the world and introduce the science knowledge that has been in the Quran since its existence.