Trying to directly hide a dock tool with 'alt+right-click' results in no change. can still be changed on the docks page of the ingame options, though requires a reload after each button to apply.

I figured out that this is only with the professions docks. The others hide docks like they're supposed to. This led me to another issue, though. When you unhide the Quest Tracker, it is darker than it should be.