As of TARDIS v3.1-beta-1 the Vault room will automatically sort items into the chests contained within it.
When the room is grown (or updated with the
/tardis update vault command) a ‘drop’ chest is added to the room (by default a TRAPPED_CHEST). Blocks/items placed in the drop chest will automatically be sent to the chest with the same block/item in it when you close the chest.
To enable sorting: