I’m not sure why that happened but I assure you that this is not an attempt to troll. This tree did not lose its leaves (I found no saplings).
I did use a bed to skip the night (planted it previous day).
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I figured out what this is and I’m sorry for wasting your time: it is the issue with chunks not rendering. Climbing that tree revealed leaves which were simply in a higher chunk which didn’t render.
Cannot reproduce, just grew a small jungle on superflat, all had leaves.
If you can find a way to reproduce this, please submit a new ticket.