Well, moving the stick around on your tranny making noises from underneath kinda leads me to think its not the tcase. More likely rocks/sticks/ice got plugged up there.
Short of taking the tcase out, tearing it apart and giving it a good look over. (A lot of work, especially for a daily driver).
If its gone now, then keep the area clean, keep an eye on your fluids in the tranny and tcase. And be done with it. But do check your driveshafts and see if the ujoints and cv need grease or replacement.
I know I can carry about 40 lbs of material packed around my tranny/tcase, between the rubigrader skidplate and body and framerails. So I know what can accumulate up there.
Short of some weird backlash from the rear driveshaft when you shift gears. Prolly just junk stuck up there.