Library Scan not finding a lot of my files

Plex Media Server
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2
  1. Only point the Plex library to the top folder, where all your tv shows are located in sub-folders. Never point to individual shows!
  2. Look up your show on TheTVDB
  3. Take the title as it is used on TheTVDB.
    If there is something in parentheses, take that too.
    If the title contains invalid characters (depends on your file system), like § : % *, simply leave them out.
  4. Check the naming and the folder structure of your show.
    Name the top folder of the show exactly after the title on TheTVDB.
    No abbreviations. No additional subfolders. No aliases.
  5. Name the episode files according to the above linked naming guide.
    Use the same title as for the top folder. Show's Title - s01e01 - additional info.ext (’- additional info’ can be left out)
  6. After you corrected the naming and folder structure, perform the Plex Dance with all files for this show.