dmclean,
I don't know the answer to your question but I would not be real surprised if that is the cause.
I had a local muffler shop weld on an exhaust pipe extension to reach the outside edge of my flatbed with storage lockers. While I was there I came very close to having him eliminate the resonator as well. I didn't because others had posted that it would make no change in the exhaust note and because I feared the unknown... ... . that even a tiny reduction in back pressure might be recognized by some damned sensor and interpreted by a computer in some unknown way I might not like.
In this age of emission control junk and several computers monitoring everything the truck does, the driver doesn't have much authority beyond selecting the direction the truck will go.
Maybe your fuel mileage reduction can just be blamed on the winds for a few days or higher or lower humidity. Or possibly you changed fuel or fuel stations?