The School of Engineering offers the following independent Postgraduate Programs:
- Energy Systems
- Organization and Management for Engineers
- Informatics & Engineering
- Advanced Production, Automation, and Robotics Systems
- Electronic Telecommunication & Automation Systems (ETAS)
- Master in Lasers, Plasma, & Applications (LaPlA)
- MASTER IN GEOENVIRONMENTAL RESOURCES & RISKS
It also offers Postgraduate Programs in partnership with other educational institutes:
- Inter-Foundational Postgraduate Program on Environmental Protection Technologies (Offered by the Department of Chemistry of the University of Crete in collaboration with the School of Engineering of the H.M.U.)
- Inter-Foundational Postgraduate Program (IPP) on “Nanotechnology for Energy Applications” (Department of Electrical Engineering & Computer Engineering and Department of Electronic Engineering of the H.M.U; Department of Chemistry and Department of Materials Science & Technology of the University of Crete and the Institute of Electronic Structure and Laser of the Institute of Technology and Research)