The invention discloses an anti-shielding self-adaptive target tracking method and system, a scale correlation filter is trained while a position correlation filter is trained, scale self-adaptive transformation can be realized, if the transformation does not exist, the size of a target frame is not changed in the training process and is the same as the size of a rectangular frame which is determined manually at the beginning, and the target frame is not changed in the training process. However, after scale transformation, the size of the target frame can be automatically changed along with the distance of the target, the target frame becomes smaller when the target moves farther from the camera, and the target frame becomes larger when the target moves closer, so that the accuracy and robustness of the whole algorithm are improved. According to the target tracking method, an adaptive model updating strategy is adopted, and whether the target is shielded or lost or not is detected by calculating a PSR value, so that a search area is expanded, the problem that tracking cannot be continued once the target is shielded or lost due to target movement and the like in a traditional target tracking method is solved, and the target tracking efficiency is improved. And the continuity and reliability of target tracking are improved.