See attached screenshot. Weirdly, it didn't only replace the bottom log of the tree, but also the one above that.
To reproduce (steps are this way because of MC-55596):
1. Create a new world with seed 7913388302499728605
2. /tp @p 1017 104 10157
3. Fly (don't teleport!) to 1017 65 9657
4. Look at the tree.
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Is this still an issue in 18w22c?

Cannot confirm in 1.13-pre1.
There is neither tree nor mushrooms at that coordinates.

The issue is most likely still present in the code, just the example we found doesn't exist anymore.
Without a working seed and coordinates, it is impossible to say whether this can still occur.
If anyone comes across that again, please provide a new seed + coordinates.