A control system is disclosed for use with a machine having a work tool and operating at a work site. The control system may have a sensor associated with the work tool and configured to generate a signal indicative of a position of the work tool, an offboard worksite controller, and an onboard controller in communication with the sensor and the offboard worksite controller. The onboard controller may be configured to receive from an operator an input indicative of a current task being performed by the machine, and track movement of a portion of the work tool corresponding with the operator input. The onboard controller may also be configured to communicate the tracked movement to the offboard worksite controller.