The roll orientation of a thrust vector control (TVC) or other missile section is measured and used to compensate the operation of the control surface. A measurement of a roll orientation of the control surface relative to the missile is obtained from a detector, memory or other source. Compensated control commands are determined at least in part based upon the measurement to account for the roll orientation of the control surface relative to the missile, and the compensated control command is provided to thereby actuate the control surface during operation of the missile.