This application relates to methods for applying automated precision machining operations to an oversized workpiece with a compact computer numerical control (CNC) machining apparatus. By shifting an oversized workpiece through a working area of the CNC machining apparatus, the CNC machining apparatus can apply machining operations to any portion of the workpiece in an automated manner. To achieve precision results, a position of the workpiece is tracked as the workpiece is shifted through the working area. In some embodiments, a probe can be utilized to track the shifting of the workpiece by determining a location of a machined feature after a particular shift has been completed. In this way, a position of the workpiece can be tracked without having to rely upon tolerances inherent to a workpiece manipulator.