Operations Division operates and maintains civil works projects throughout Florida and Puerto Rico for the purpose of navigation, flood damage reduction, environmental stewardship and recreation. The division consists of five branches: Emergency Management, Invasive Species Management, Multi Project, Navigation, and Hydrographic Survey.

Operations Division consults with other elements in the Jacksonville District in regard to policy issues concerning navigation dredging, navigation structures, operations and maintenance on locks and dams, maintenance of local flood control structures (Inspection of Completed Works), and the invasive species management program. The division provides guidance for developing designs, plans, and specifications for mechanical systems in support of the District’s operations and maintenance program.