Stonehill International School is governed by the Governing Council of the Stonehill Education Foundation. The Governing Council appoints the School Director who is responsible for the day-to-day operations of the School. The Director, in turn, appoints Principals of the Secondary and Primary Schools and is responsible for hiring all faculty and support staff. Additional responsibilities of the Director include overseeing curriculum development, budgetary disbursement and implementation of all policies, as outlined and approved by the Governing Council. The School's primary years, middle years and diploma programmes are each administered by a Programme Coordinator who is a full member of the faculty and has part-time teaching responsibilities within his/her programme.

All Coordinators are experienced IB teachers and in some cases, IB trainers and moderators. Accreditation is a process that validates all aspects of a school's operation such as organization and administration, school facilities, the faculty and support staff, student services, health and safety, financial stability as well as the academic programme. Stonehill International School will seek accreditation from two globally recognised authorities in education: the New England Association of Schools and Colleges (NEASC) and the Council of International Schools (CIS). Stonehill International School has successfully completed a NEASC/CIS pre-accreditation visit and is now in the self study phase of accreditation.