Can't list 1 directory in bucket so sync doesn't work properly

good, we are making progress

well, everything in s3 is an object, that file and directories are abstractions.

https://docs.aws.amazon.com/AmazonS3/latest/userguide/using-folders.html
so to make life easy for aws s3 users of the website, needed to have a hierarchical structure to emulate a typical file system.
so to emulate a directory, amazon would create an zero byte object , with a name that ends with a forward slash.
2019-11-01 16:58 0 s3://shine-oms/uploads/app/2013/

most apps do that themselves, cloudberry explorer, s3brower and so on.

rclone is not fully compatible with that.
for example, https://rclone.org/commands/rclone_mount/#limitations
"The bucket based remotes (e.g. Swift, S3, Google Compute Storage, B2, Hubic) do not support the concept of empty directories, so empty directories will have a tendency to disappear once they fall out of the directory cache."