That did the trick.
In my case with Digital Ocean and s3fs I had to turn off the mount
fusermount -u /home/yunohost.app/gotosocial
I then ran the update.
After, I turned the mount back on…I’m not sure if GTS still uses the original Storage Base Path, but I did it anyway. Do replace the 666 UID and GID accordingly.
s3fs bucketname:/path/to/folder/ gotosocial/ -o url=https://[region].digitaloceanspaces.com -o use_cache=/tmp -o allow_other -o use_path_request_style -o uid=666 -o gid=666
Thanks @jarod5001