We propose a new framework based on Belief‐Desire‐Intention multi‐agent systems for the macroscopic modelling and simulation of continuous dynamic systems. The main idea is to break down the target system model into a collection of autonomous and loosely coupled interacting components endowed with clean message‐based interfaces and local intelligence. Each component is then mapped to a Belief‐Desire‐Intention agent that captures its state as a set of logical facts and its behavioural patterns as a set of plans. The system model can be described as a multi‐agent programme that is specified using the state‐of‐the‐art Jason agent‐oriented programming language. The approach is evaluated by considering a generalized graph‐based model of predator–prey systems. Our approach supports the configuration of the multi‐agent model with various differential equations integration methods, as required by the specific problem.