Technically, they are only available to GI's or infectious disease specialists to treat C.diff, it's up to the discretion of your doctor as to what they are willing to use them for.
You also have to factor in that there is a US $150 handling and delivery fee per order to ensure product remains frozen in the distribution process.
C. diff is the only thing I have heard of that can be fixed with a single course of FMT and I think it would be unrealistic to expect to achieve remission of a long standing condition with one treatment. The protocol used here in Australia for anything else is 10 consecutive treatments at a cost of about A $6,500 last time I checked, comparable in price to ten courses of the capsules but a large outlay for a "maybe"
http://cdd.com.au/