Considered the trajectories of the milling cutter teeth with radial runout. Developed a mathematical model and calculation program to determine the thickness of the removed layer, taking into account the trochoidal movement of the teeth and their radial runout. It was found that with the radial runout of the teeth, the thickness of the layer removed by each tooth changes relative to milling without runout—some teeth receive less load and remove less material, while the load on others increases. The maximum change is observed at small contact angles between the milling cutter tooth and the workpiece, which occurs during contour and trochoidal milling. It was found that the radial runout of the teeth and the feed per tooth significantly affect the change in the thickness of the removed layer. The influence of the diameter of the milling cutter and the radial depth was not identified.