A plant control system has an actuator for generating an input to the plant, a first sensor for detecting an output from the plant, a manipulated variable determining unit for sequentially determining a manipulated variable which determines the input to the plant to equalize the output from the first sensor to a predetermined target value, an actuator controller for controlling operation of the actuator based on the manipulated variable determined by the manipulated variable determining unit, and an estimator for sequentially generating data representing an estimated value of the output from the first sensor after a total dead time which is the sum of a first dead time of the plant and a second dead time of a system which comprises the actuator and the actuator controller. The manipulated variable determining unit determines the manipulated variable based on the data generated by the estimator.