Best practice for user to move directories

We have an admin user and have a lot of the shared folders in there (we dont allow resharing). The person who was administrating the data moved a lot of stuff around using the web interface. We now have a bit of a mess. Duplicated folder names (if you delete one it deleted both. We also have a folder (whitch is duplicated) that whant you click on it takes you to the parent folder. Verry odd.

Anyeay we are rebuilding the data in another user but was wondering what we the best practice when you want to reorginise stuff. This is so it does not get messed up again. I am suessing it is best to do it through the filesystem of shared folder, doing it in the web interface has not worked out well for us;(.

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I am not quite sure what you want to achieve, could you clarify?