Faculty of Innovation Engineering was reorganized based on “Faculty of Information Technology”, one of the first four faculties established in the newly founded Macau University of Science and Technology in 2000. In order to strengthen the engineering disciplines and stipulating more coherent academic planning and development of areas of excellence, the university declared the establishment of Faculty of Innovation Engineering(FIE) on March, 2022. As an interdisciplinary faculty, the Faculty of Innovation Engineering brings together a team of professional teachers from different fields to provide students with comprehensive engineering learning and practice. The faculty has established the School of Computer Science and Engineering, the Department of Engineering Science, the Department of Materials Science and Engineering, the Department of Environmental Science and Engineering, and the Department of Space Science and Technology, covering multiple fields such as electronic engineering, computer science, materials engineering, environmental science, space technology, etc., to meet the learning needs and career development goals of different students. By providing high-quality educational resources and cultivating interdisciplinary capabilities, the Faculty of Innovation Engineering lays a solid foundation for students' academic development and career success.

 The Faculty of Innovation Engineering has the following research units: Macau Institute of Systems Engineering, Macau Environmental Research Institute, International Institute of Next Generation Internet, Macao Centre for Mathematical Sciences and Space Science Institute. This structure also facilitates cross-departmental collaboration with other units within the university, including the Faculty of Medicine, the State Key Laboratory of Quality Research in Chinese Medicine, Dr. Neher’s Biophysics Laboratory for Innovative Drug Discovery, and the State Key Laboratory of Lunar and Planetary Sciences, the National Observation and Research Station of Coastal Ecological Environments in Macao and Key Laboratory of River Basin Digital Twinning of Ministry of Water Resources.

 In order to promote the transformation of industry-university-research results and promote the moderately diversified development of Macau's economy, Macau University of Science and Technology established the MUST LIU’s Innovation and Technology Center in October 2023. The establishment of the center has received strong support from the Macao Special Administrative Region Government, and it is expected that this platform will promote the accumulation of scientific research results and the cultivation of outstanding talents, enhance Macao's influence and competitiveness in the field of scientific research. It is also regarded as an interdisciplinary cutting-edge scientific and technological research center in Guangdong, Hong Kong and Macao, and is expected to become an important base for cultivating talents and promoting industrial development.