Deep learning (DL) approaches, which do not rely on models and can learn complex relationships within data, garner increasing attention in the model-free multi-target tracking (MTT) domain. However, the study of applying the DL method to multi-sensor fusion-based MTT is relatively less. In this paper, we propose a Transformer-based distributed multi-sensor MTT approach, which adopts a hybrid fusion structure with both feature-level and decision-level fusion. First, for each local sensor, the high-dimensional feature information is extracted from the measurements based on a Transformer-based tracking module, which enables continuous tracking of multiple targets and provides the predicted target states and corresponding uncertainties. Then, the outputs of local sensors are fused using the covariance interception (CI) fusion rule. Finally, to further improve the fusion performance, the decision-level information is fed into a fusion decoder with the feature-level information to obtain the predicted target state and uncertainties after deep fusion. In this way, we realize a deep utilization of different sensors’ information and achieve a feature-level decision-level hybrid multi-sensor fusion, namely, Transformer-based multi-sensor hybrid fusion (TMSHF). Simulation results show that the proposed fusion method outperforms the CI algorithm in various tracking scenarios.