Purpose This paper aims to investigate the problem of adaptive bipartite tracking control in nonlinear networked multi-agent systems (MASs) under the influence of periodic disturbances. It considers both cooperative and competitive relationships among agents within the MASs. Design/methodology/approach In response to the inherent limitations of practical systems regarding transmission resources, this paper introduces a novel approach. It addresses both control signal transmission and triggering conditions, presenting a two-bit-triggered control method aimed at conserving system transmission resources. Additionally, a command filter is incorporated to address the problem of complexity explosion. Furthermore, to model the uncertain nonlinear dynamics affected by time-varying periodic disturbances, this paper combines Fourier series expansion and radial basis function neural networks. Finally, the effectiveness of the proposed methodology is demonstrated through simulation results. Findings Based on neural networks and command filter control method, an adaptive two-bit-triggered bipartite control strategy for nonlinear networked MASs is proposed. Originality/value The proposed control strategy effectively addresses the challenges of limited transmission resources, nonlinear dynamics and periodic disturbances in networked MASs. It guarantees the boundedness of all signals within the closed-loop system while also ensuring effective bipartite tracking performance.