the cleaner is an empty disk with some kind of coat in it to clean the head. there is and a little bottle with cleaner liquid and you put some drops in, then you insert that damn thing in the drive. because there is no data on it the amiga can't read it and so can't make it turn arround a lot of times,so this is the job of the program. it gives the disk some turns to do the job.
but you can do without the prog. just insert the cleaner more than just one time, try 3-5 times, probebly will be enough