As per discussion, #1901 sharding compactor is currently not fully safe. Please do not use it or use only for smaller setups.
We are working on this, but the reason is also partially explained in https://docs.google.com/document/d/1QvHt9NXRvmdzy51s4_G21UW00QwfL9BfqBDegcqNvg0/edit#
TL;DR:
- Compactor A for shard cluster = A is uploading the block X - upload takes more than 30m
- Compactor B is syncing all blocks. It see block X that is being uploaded for more than 30m, removing block.