Plex Media doesn't detect automaticaly new media

It is likely you have more directories now than the default Linux table allows.
This is pretty easy to resolve.

Using File Manager,

  1. Go to a media share
  2. Right-click it → Properties
  3. Let it count the number of files and folders. We are interested in the number of folders.
  4. When you are all done counting all the folders in use, if that number is greater than 8192, then you have the answer.

Syno FAQ #16 will help you.