Prior to the Civil War, machining was hit and miss for production guns... and even some modern guns for that matter. Thank Eli Whitney for the improvements in that area. A .36 rifle was always a .36, but a percussion revolver needs to be a bit larger in order to facilitate a good gas seal in the chamber... say .375 or so. The ball will shave a ring of lead as it is chambered and when it goes through the forcing cone, it will get sized to .36 or so which is the approximate diameter of the lands, and will obturate into the grooves as it passes into the bore. If memory serves, .38 is approximately the diameter of the grooves, which is how later revolvers got labeled .38, even though the bullets are actually .357 - .358.
You can, in fact, paper patch a .357 LSWC and shoot it in a .36 caliber muzzleloader with some as yet undetermined by myself level of accuracy. I'm waiting for warmer weather for this experiment.
I agree, a muzzleloading rifle in .38 caliber that would take .375 patched round balls would be a glorious thing, but I would like one that takes a .429 bullet with a paper patch to match the bullets I use in my .44 Special revolver. I'm just weird like that.