This is a rare occurance. If a player hits a true double, the runner on second usually scores. If the batter-runner reaches 2nd on the throw to the plate, he should be credited with single and an advance to 2nd. If, however, the runner was held up because he thought the ball might be caught, it is very possible for the batter-runner to reach 2nd well before the lead runner reaches home.

So, to answer the question - K-ForCE will advance the runner home from 2nd on a double. There is no way to override this behavior. You will need to remove the RBI and navigate using the 'Lineup' menu to the batter who scored. You need to undo the scoring, advance the runner to 3rd instead, then score the putout.