I think it depends on what you like. So personal preference.
When I can chicken it will be breast meat in one jar - for sandwiches, on salads, shredded for tacos and such - and dark meat in another for chicken stew, chicken soup, chicken and dumplings. Not a real big fans of dark meat in our house, but it sure is good in anything with a heavy sauce or broth.
I will probably try whole thighs and legs on the bone without the skin for my first try at canning dark meat. I will use the skin and the rest of the carcass (minus the breast meat) to make broth for putting in the jars.