The Ministry Organizational Structure consists of six (6No.) Technical Departments, eight (8) Service Departments, nine (9) Service Units and fifteen (15) Agencies & Parastatals including 12 Nos. River Basin Development Authorities as follows:
The Ministry:
- Operational Departments
- Dams & Reservoir Operations
- Irrigation & Drainage
- River Basin Operations & Inspectorate
- Water Quality Control & Sanitation
- Water Resources Planning & Technical Support Services
- Water Supply
- Service Departments
- Finance & Accounts
- General Services
- Human Resources Management
- Internal Audit
- Service Unit
- Legal Services
- Press & Public Relations
- Procurement
- Reforms Coordination & Service Improvement
- Special Duties
Agencies and Parastatals
- Agencies
- National Water Resources Institute
- Nigeria Hydrological Services Agency
- Nigeria Integrated Water Resources Management Commission
- River Basin Development Authorities
- Anambra Imo River Basin Development Authority
- Benin Owena River Basin Development Authority
- Chad Basin Development Authority
- Cross River Basin Development Authority
- Hadejia-Jama’are River Basin Development Authority
- Lower Benue River Basin Development Authority
- Lower Niger River Basin Development Authority
- Niger Delta Basin Development Authority
- Ogun Osun River Basin Development Authority
- Sokoto Rima River Basin Development Authority
- Upper Benue River Basin Development Authority
- Upper Niger River Basin Development Authority