Unmanned systems fill a vital role in the education community by providing multidisciplinary learning opportunities within science, technology, engineering, and mathematics. At EmbryRiddle Aeronautical University (ERAU), the use of unmanned systems within the undergraduate curriculum has created unique hands-on opportunities for students, and developed research options for faculty in aerospace, computer, electrical, and mechanical engineering and computer science. In fall 2013, ERAU’s Daytona Beach campus launched a Master of Science degree in Unmanned and Autonomous Systems Engineering (MSUASE) as a cross-departmental collaboration. This paper provides a detailed overview of the MSUASE program, its mission, objectives, and student outputs. Research projects used for capstone and thesis opportunities are described including ERAU’s Maritime Robot X Challenge unmanned surface vehicle and the Cessna 182Q surrogate unmanned aircraft system (UAS). Issues related to the International Trade of Armaments Regulations (ITAR) will be discussed. Finally, a summary of lessons learned will be provided after one year of the program’s operation.