Once you imported the photos from your camera to LR, you cannot move or rename anything using windows explorer. You need to move the files using LR. You can move ONE folder, or multiple photos. You cannot move more than 1 folder at once. You can also rename files or folder using LR.
Under import you can create an import profile and save it (bottom of the page). So the naming of the file, under what folder etc. will be saved. You can have more than 1 import profiles.