Yes Angie, it takes several flushes to get them all out. Some folks do one every two weeks and others (like me) wait a little longer. My wife and I just did flush # 1 and will do a flush every month until two or three flushes produce no stones.
If you've already done the parasite cleanse you might be able to get away with a maintenence or high dose and zap the week prior. And of course a Bowel Cleanse the week before will help too, and maybe even a coffee enema the day of the flush.