In order to improve the monitoring capability of marine biological ecological environment, a monitoring model of marine biological ecological environment based on complex dynamic network model is proposed, and an optimal deployment method of complex dynamic network nodes for marine biological ecological environment monitoring based on multi-sensor fusion tracking scheduling is constructed. An optimized topological structure model of a complex dynamic network node for marine biological ecological environment monitoring is constructed; an output link model of the marine biological ecological environment monitoring network node is designed by combining a node output load balancing adjustment method; a spatial link block balancing scheduling technology is adopted for adaptive weighted learning of multiple coverage links of the marine biological ecological environment monitoring network node; a multi-sensor fusion tracking scheduling method is adopted to construct a multi-coverage link equilibrium scheduling model of marine biological ecological environment monitoring network nodes; a complex dynamic network node coverage analysis is carried out by combining a hierarchical analysis method; an optimal deployment model of the complex dynamic network node for marine biological ecological environment monitoring is established; and the optimal deployment of the complex dynamic network node for marine biological ecological environment monitoring is realized by combining a principal component analysis method and a fuzzy clustering method. The simulation results show that the optimized deployment of complex dynamic network nodes for marine bio-ecological environment monitoring by the method has better intelligence and scheduling accuracy, reduces the error rate of network communication, and improves the balanced deployment capability of complex dynamic network nodes for marine bio-ecological environment monitoring. The stability of data transmission is improved. It provides a favorable basis for marine ecological environment monitoring.