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Some clarifications first: Both LXC and LXD are tools to manage Linux containers. LXC is low level, LXD is a newer, more polished containers manager.
So, lxc config is LXD's way to configure a Linux container, while lxc.mount.entry = inside container's config file is LXC's lower level way to achieve the same thing.
Apparently you use LXD, so stick with it, ...
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Containers: 16
Running: 14
Paused: 0
Stopped: 2
These mounts are used by running containers. In your info it appears you have 14 running containers. A prune command will not stop and delete running containers, so that isn't expected to cleanup these mounts. To remove the mount you need to stop and delete the container. Use:
docker container ls # list ...
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cat /etc/fuse.conf
# mount_max = 1000
# user_allow_other
Uncomment the user_allow_other line and then this will be work.
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