Injection molding system having a flow control apparatus and method that controls the movement and/or rate of movement of a valve pin over the course of an injection cycle to cause the pin to move to one or select positions and/or to control the rate of movement of the pin over the course of the injection cycle. In one embodiment the method includes steps of: a) first controllably operating the actuator to drive the valve pin upstream beginning from the first closed position (50) to be moved to and held in a first selected position (51) for a first selected period of time during the course of an injection cycle, the first selected position (51) being the full open position; b) second controllably operating the actuator to drive the valve pin, during the injection cycle, downstream beginning from the first selected position (51) to be moved to and held in a second closed position (52) for a second selected period of time; c) third controllably operating the actuator to drive the valve pin, during the injection cycle, upstream beginning from the second closed position (52) to be moved to and held in a second selected position (53) for a third selected period of time, the second selected position being an intermediate position or the full open position; and d) fourth controllably operating the actuator to drive the valve pin, during the injection cycle, downstream beginning from the second selected position (53) to be moved to a third closed position (54).