If you have erosion from acid reflux, you may have to take a PPI until it heals. Problem is, the same medications that reduce acid bring it back with a vengeance when you try to stop taking them. You may want to discuss the newer studies that are coming out reg. undesirable side effects with your physician. If you are perimenopausal or menopausal, make sure you are taking adequate calcium supplementation, preferably calcium citrate and vitamin D3 (1200 mg calcium, 1000 mg D3 daily) to ward off osteoporosis.
I took a PPI for only three years (ages 52 through 55) and ended up with advanced osteopenia in both hips. My Dexa scan was completely normal at 52 and showed the advanced osteopenia at 55, which is why I stopped taking Aciphex in January, 2010.
I don't think these PPI's are intended to be taken long term, and time and further research will continue to bear that out. But it is hard to get off them due to acid rebound effects.
It took me three months to be able to go back to my pre-PPI symptoms, which I am now trying to manage with natural remedies. I started a thread in January that went on for a couple of months and you can probably find by typing "Getting off PPI's and acid reflux."
I was pretty happy with my GI doctor and general practicioner and think both are generally competent doctors. However, both pushed the PPI and neither brought up any undersirable side effects. I had to go search for those on my own.
But everyone's situation is different.
Rose