Effective January 1, 2023, the Bank adopted a new organisational structure, which shows an increase in the number of functional Departments from eleven (11) and one Division to thirteen (13) Departments, one Division, and a semi-autonomous Deposit Insurance Scheme, as articulated in the Bank of Botswana (Amendment) Act, 2022. The Departments/Division are as follows:
- Banking, Currency and Settlement
 - Prudential Authority and Payments Oversight
 - Corporate Management Services
 - Finance
 - Financial Markets
 - Human Capital
 - Information and Communications Technology
 - Internal Audit Services
 - Business Conduct and Regulatory Compliance
 - Protective Services
 - Research and Financial Stability
 - Property Management, Procurement and Projects Division
 - Statistics Data Management and Analytics
 - Strategic Planning and Risk Management
 
All Departments and the Division report to the Governor through the Deputy Governors.