Transit Origin-Destination (OD) data are fundamental for optimizing public transit services, yet current collection methods, such as manual surveys, Bluetooth and WiFi tracking, or Automated Passenger Counters, are either costly, device-dependent, or incapable of individual-level matching. Meanwhile, onboard surveillance cameras already deployed on most transit vehicles provide an underutilized opportunity for automated OD data collection. Leveraging this, we present TransitReID, a novel framework for individual-level and occlusion-resistant passenger re-identification tailored to transit environments. Our approach introduces three key innovations: (1) an occlusion-robust ReID algorithm that integrates a variational autoencoder-guided region-attention mechanism and selective quality feature averaging to dynamically emphasize visible and discriminative body regions under severe occlusions and viewpoint variations; (2) a Hierarchical Storage and Dynamic Matching HSDM mechanism that transforms static gallery matching into a dynamic process for robustness, accuracy, and speed in real-world bus operations; and (3) a multi-threaded edge implementation that enables near real-time OD estimation while ensuring privacy by processing all data locally. To support research in this domain, we also construct a new TransitReID dataset with over 17,000 images captured from bus front and rear cameras under diverse occlusion and viewpoint conditions. Experimental results demonstrate that TransitReID achieves state-of-the-art performance, with R-1 accuracy of 88.3 percent and mAP of 92.5 percent, and further sustains 90 percent OD estimation accuracy in bus route simulations on NVIDIA Jetson edge devices. This work advances both the algorithmic and system-level foundations of automated transit OD collection, paving the way for scalable, privacy-preserving deployment in intelligent transportation systems.