The bipartite formation control for the nonlinear discrete-time multiagent systems with signed digraph is considered in this article, in which the dynamics of the agents are completely unknown and multi-input multi-output (MIMO). First, the unknown nonlinear dynamic is converted into the compact-form dynamic linearization (CFDL) data model with a pseudo-Jacobian matrix (PJM). Based on the structurally balanced signed graph, a distance-based formation term is constructed and a bipartite formation model-free adaptive control (MFAC) protocol is designed. By employing the measured input and output data of the agents, the theoretical analysis is developed to prove the bounded-input bounded-output stability and the asymptotic convergence of the formation tracking error. Finally, the effectiveness of the proposed protocol is verified by two numerical examples.