I've typically used it on real-time programs that were overrunning their timeslice. You can't manually stop and restart code that has to run 60 times every second.
I've also used it to track down the bottleneck in a compiler I had written. You wouldn't want to try to break such a program manually, because you really have no way of knowing if you are breaking at the spot where the bottlenck is, or just at the spot after the bottleneck when the OS is allowed back in to stop it. Also, what if the major bottleneck is something you can't do anything about, but you'd like to get rid of all the other largeish bottlenecks in the system? How to you prioritize which bottlenecks to attack first, when you don't have good data on where they all are, and what their relative impact each is?
