A powertrain engine control method may include: acquiring period information based on tooth information of an engine crank target wheel by using a timer (T); subdividing the period information by a division rate value (R) by using a timer (D) so as to enable the timer (D) to operate R times; carrying out synchronization with the timer (D) and carrying out counting by using a timer (A) from a zero (0) to 720 degrees for a four-stroke engine operation cycle; and correcting, by using a timer (V), an angle counter which is not generated at the time of deceleration of a vehicle.