The organization is under the control of the Board of Trustees (BoT) who meet periodically to formulate policies and approve programs for the organization. The BoT also assist in raising funds for projects. Among other duties, the Board also approves budget, champions the organization's cause and represent it in the larger community.
The management of NIWOSEC is headed by the Executive Director / Lead Strategist, who is the Chief Executive Officer. He is responsible for the overall administration of NIWOSEC and manages its day-to-day activities. The Executive Director is also a member of the Board of Trustees and reports to the Board.