I had no major stomach problems until I started PPI's. Yes, I had the reflux but nothing like what I have now. I have constant stomach burning pain, nausea, cramping, etc. Its awful!
My gallbladder is shot and I am having it out next week. I have read articles in the past stating that long term use of PPI's can lead to gallbladder issues as well.
I am coming off the prilosec but its a long road since I have been off of them for so long.
I don't know if this is any help. Always run things by your dr before making any big changes.