We have sell all wares ...
Yes, we need to manualy mark every item as wares before ... even tho it takes only single click, it could seem anoying. O_o
But have you concidered that absence of items automaticly marked as "junk" could teoreticaly also mean that every "junk" we loot now, will be somehow useable when crafting will be introduced?
That's the thing - I don't want to manually mark junk as junk. It's not one click if you have 100+ junk items - it's a hundred clicks.
If an item can be used for crafting, it's automatically not junk - it's a crafting material.
Witcher 3 does this in a very nice way.
Quest items / Story items, Weapons, Armor, Crafting Material, Junk
Edit: and there is even a "Sell all junk" button.