The Executive Education Program is one of the most prestigious leadership programs in the nation. Offered through the O'Neill School of Public and Environmental Affairs, the Executive Education Program works with the government, nonprofit agencies, and the private sector to prepare leaders and managers to meet today’s challenges and anticipate tomorrow’s opportunities.

The Executive Education Program offers graduate level programs for the United States Navy and nonprofit organizations. Graduate programs include the Master of Public Affairs (M.P.A.), the Public Management Certificate (P.M.C.), and the Nonprofit Management Certificate (N.P.M.C.).

In 1985, the Executive Education Program formed a partnership with the American Association of State Highway and Transportation Officials (AASHTO), the leading transportation organization in the United States. Together they created two institutes to challenge and educate transportation leaders, the National Transportation Leadership Institute and the Advanced Leadership Institute, two of the most influential leadership development programs for transportation officials.

In partnership with the Indiana Hospital Association (IHA), the Executive Education Program created a 10-course management curriculum leading to a Certificate in Healthcare Management. Through the IHA Management Institute, managers are equipped with the knowledge, skills, and abilities to help them lead their organizations in a rapidly changing environment. Another partnership is with the Indiana Association of Cities and Towns (IACT). The Executive Education Program was engaged by IACT to develop and deliver professional development programs just for mayors from 2008–2011.

O'Neill’s Executive Education Program also offers customized leadership and management programs for local, regional, national, and international clients.