A controller for controlling an internal combustion engine includes an injection amount calculation portion that calculates a base injection amount, an injection amount correction portion that corrects the base injection amount to calculate first and second corrected injection amounts, and an injection count determination portion that determines first and second fuel injection counts, which are respectively a number of times fuel is injected from first and second fuel injection valves. When the first and second corrected injection amounts are respectively calculated using the same base injection amount, the injection count determination portion sets the first fuel injection count corresponding to the first corrected injection amount to be equal to the second fuel injection count corresponding to the second corrected injection amount.