What I expected to happen was...:
That when I get out of the mine cart underwater it would stop and stay there.
What actually happened was...:
The minecart started disappearing and coming back. The hitbox was still there and I could still ride it and it would come back.
Steps to Reproduce:
1. Ride an unpowered minecart into a one block deep source block with rails.
2. Get out of the minecart
3. look at the minecart and see if it disappears
Note: The minecart has to be completely submerged
Note 2: For some reason It wont happen on multiplayer
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Yes it also happens with the other minecarts as well. Also I've noticed in a LAN world that only I can see the glitch and if another player rides the minecart they just flout in the water in a sitting position.

lol i reported the same issue

It doesn't happen from all angles though for example:
visible:
and not visible from a just slightly different angle:
I think it is clearly visible how to reproduce this.

Duplicate of MC-197328.
Does it also happen with other entities?