jasm:do you use stereophoto maker to edit you mpo's?
you can easily do a multi conversion to swap left right and it will resave them as mpo's.
I checked out stereophoto maker. You're right. It's easy to convert all the photos in one operation, swapping eyes. The only drawback is that I need to keep two copies of all the photos. I created another directory with the swapped copies of everything. They import into Studio just fine after conversion. I made a test movie and it turned out great. It looks like that will be the simplest option.
Thanks again to both of you for your help!
Joe