Under the regulations prior to this year you would have been correct, but now the regulations state that we are to assume the worst possible state you could put caps back into, making it a DNF.
EDIT: Added the regulation. 5b5) If parts of the puzzle are still defective or not fully placed at the end of the attempt, the result is recorded as the worst state obtainable by repairing the puzzle (see Regulation 5b3).