NCPeds is governed by a Board of Directors. A new class of Directors is elected bi-annually via an online process that culminates at NCPeds Annual Meetings. Each Director serves a two-year term, Board Officers are elected by the members.
Several committees were created by the board and charged with projects to further the society's mission and vision.
The society's bylaws were updated in April 2016 by unanimous vote of the board. As per the bylaws, the NCPeds financial statements are available for all members to review. The fiscal year is a calendar year. Daily operations are managed by an Executive Director and a staff comprising full- and part-time professionals. Board members are volunteers.