Smartest Coach in the World

[umpire99]

I had a game today where a coach employed maybe the smartest play I had ever seen. R1 & R3 with two outs. Instead of stealing second base, R1 takes off for short right field and stops a few feet in front of F9. F1 steps off and hold onto the ball for about 30-45 seconds. When R1 starts toward second base, F1 throws late and R3 scores. I don't see any possible defense for this. The defensive coach wants the runner called out, but there is no basis for this. He informs me that if this happens again, he will instriuct his F1 to simply hold the ball and bring the game to a halt. What would you do if this happened? I would think that we could somehow penalize the defensive team for making a mockery of the game if his F1 refused to throw the ball.