There had been indeed a small change. There is a usealldoors (new) and useallchests permission (under general). If it's about naturally spawned objects (e.g in POI's), the usenaturalobjects permission (new) will be relevant. Otherwise everything is affected by the general useallobjects permission.
I've also updated the overview of all permissions: Permissions [New Version]
However, if something still does not work as expected, please let me know
I have updated the permissions with those you mentioned and its acting the same. What's weird is, if the player removes the door they cant open and places it back down, it works after that. Is there a permission tied to who placed the door? I should also note, the player is using a house I blueprinted for him. Its on his area protection but i placed it.