The stones in your liver can move to the gallbladder, causing pain, infection, etc. Plus, stones cause the liver to not work efficiently which can lead to, among other things, allergies, weight gain, jaundice.
As for the flush, you may still pass some stones. If not, do another flush in 2 or 3 weeks. This will give additional stones time to move forward. Every flush for each person is different. Some will always be better than others. One flush may almost seem a waste of time while the next yields amazing results. You just have to stick with it!