There is provided a control apparatus for a cylinder injection internal combustion engine which suppresses fuel pulsation caused by cam phase deviation and thereby prevents internal combustion engine exhaust deterioration, so that the reliability of a high-pressure fuel system using a high-pressure fuel pump is improved. The control apparatus for a cylinder injection internal combustion engine includes a high-pressure fuel pump that raises the pressure of fuel and discharges the fuel to a fuel rail, and a fuel pressure sensor that detects a pressure of fuel stored in the fuel rail. The control apparatus controls the high-pressure fuel pump based on the fuel pressure detected by the fuel pressure sensor. The control apparatus further includes a cam phase estimation means for estimating a phase of a cam shaft of the internal combustion engine which drives the high-pressure fuel pump, and based on the phase estimation value calculated by the cam phase estimation means, corrects the amount of controlling the high-pressure fuel pump.