• Minister
• Deputy Minister of Administration
• Assistant Minister of Admistration
• Human Resources for Health
• Communication Unit
• Compliance Unit
• Minister's Delivery Unit
• Procurement Unit
• Housing Unit
• Infrastructure Unit

• Office of the General Council
• Internal Audit
• Office of Financial Management
• Transport Unit
• Information Communication Technology Unit
• Warehouse Unit
• Mailing Unit
• Maintenance Unit
• Energy and Power Unit

• Nursing and Mid-Wifery
• Non-Communicable Disease Division
• National Diagnostic Unit
• Neglected Tropical Disease
• Performance Based Unit
• EPI Unit
• Mental Health Unit
• Quality Management Unit
• Supply Chain Management Unit
• Pharmacy Unit

• Nutrition Unit
• Community Health Services Division
• County Health Services
• Health Promotion
• Eye Health
• Family Health Division
• CMO
• Bureau of Curative Services
• Bureau of Preventive Services

Planning

• Policy and Planning Unit
• External Aid Unit
• HMER Unit
• Vital Statistics
• Health Financing Unity
• Health Information System
• Governance and Decentralization Unit

Programs

• FARA
• Global Fund
• Pool Fund
• World Bank
• National Leprosy & TB Control Program
• National AIDS Control Program
• National Malaria Control Program