In both mineshafts and dungeons, the chests spawned are empty. I am sure that I have never mined in these mineshafts and dungeons, and the chests are empty. My personal chests are also empty, but I know that's because I went from a newer version to older version. I have tried closing and reopening Minecraft, but still nothing. Screenshots attached.
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While I can't confirm the empty chest at the mineshaft (there wasn't even a dungeon at the other two coordinates), this caught my eye:
but I know that's because I went from a newer version to older version.
That's still MC-45009.
Does this occur without the resource pack enabled?
Also, please post the seed of the world.