I just replaced the front hubs myself on my 04 EB, 4WD with 103K. Part of this job is separating the axle from the hub which can be corroded together. I used a hub puller but on one of them it needed the pursuasion of a hammer. I gave it one short blow to the end of the axle get separation.
If you took it to a Ford Dealer, I am sure they did installed your hubs correctly. If you did it with a company less familiar with the configuration they may have gotten heavy handed with the axles. I think that repeated strikes to the axle or not using a puller could work the CV joint pretty hard. This might be what you are hearing as the CV joint has to pivot when turning.
If you are feeling it from the rear, based on your mileage (and mine too) it's probably time for rear differential fluid change. The friction modifier could be warn out and oil change plus new friction modifier for the clutch plates might be what the rear differential is needing.
