I had the same thoughts when I started the Liver Flush protocol. The parasite cleanse is relatively easy to do and is part of the body cleansing program.
You may be correct that your cleansing has got to a stage where the digestive system is operating more naturally and this has encouraged the biliary system to function better, forcing out some sludge (stones).
When I had my first ultra-sound, it didn't show any stones, just sludge. However, after several flushes I produce the stones as shown on this link: