Projects (folders and sub fodlers) in Vault

In workgroup PDM Vault, I created projects (folders and sub folders) to categorize the documents; however, I created only one local working folder.

With this setup, I don't have to worry about duplicating file names while creating a new part and saving it in the local working folder.   I have option to select a project in Vault while checking in the part

in ePDM, local working folder is a mirror of the actual Vault so it's included all Vault's projects (folders) and it's kind of confusing to select a project to save a new part

I'm a newbie to ePDM, so please be patient and explain how this works

thanks

SolidworksSolidworks Pdm enterprise Pdm