Due to the use of multi winding high-frequency isolation transformers in the three port isolated bidirectional DC-DC converter to achieve port isolation and power transmission, there is a power coupling problem between each port. This article proposes a Model Prediction Control (MPC) strategy to address this issue. Considering the control objectives for each port of the Three Active Bridge (TAB) DC-DC converter, a discrete predictive model of the TAB converter is established based on phase-shifting modulation and average model. The MPC problem is solved optimally and a predictive controller is designed with control accuracy to achieve decoupling control effect between each port. And the traditional single voltage closed-loop control, diagonal matrix decoupling control, and model predictive control proposed in this paper are compared through simulation. Finally, a TAB converter experimental platform is built based on the DSP control chip TMS320F28335. The experimental results are verified the effectiveness and superiority of the proposed method, as well as its faster dynamic characteristics and power decoupling ability between each port.