I don't think I ever had a flush that my liver didn't feel like it had had a very good work out at the gym. That soreness became almost welcomed over the many months of flushing. After to or 3 days, it cleared up, just like sore muscles after a work out.
Be patient, learn what's going on with your body.
I also had a time when a flush came to a dead standstill. I'd been having hunreds of stones pass. This one I had only passed 12 or so when it just STOPPED. Within 24 hours, I had a dull pain in my right side. I was taking GCG at the time, thankfully. After 2 or 3 days, it broke apart and flush continued. What came out was 2 large grape-sized stones that were very dark and a PILE of black sand ... put all that together it would have been as large as my fist. I had planned to flush again the following weekend but it was unnecessary.