The Center Punch 3D 

tool is used similar to the Drilling 3D tool. Adjust the Diameter in the Object Properties, that can be reached as used in method bar. Then click on the surface of a Custom Part or a Cabinet to create a Center Punch.

The depth of the Center Punch is defined in the machine-specific Production Settings for the VectorWOP export.

You can also draw a 2D locus or a Circle on the surface, select it and convert it to a Center Punch by clicking the "Create Center Punch from Activated Object" button in the method bar. If you use a circle, the diameter is taken as the diameter of the Center Punch, if you use a 2D locus, the standard diameter is used.