Doctor Who Classics: How to arrange them

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You can try using custom folder names with the air order as the display order. However, there are some issues with custom folder names, episodes will show up twice--once in the custom folder and again in the season folder. They'll have the air order episode number, but at least you'll be able view by the story arc.

Doctor Who (1963)
 An Unearthly Child
  s01e01.ext
  s01e02.ext
  s01e03.ext
  s01e04.ext

 The Daleks
  s01e05.ext
  s01e06.ext
  s01e07.ext
  s01e08.ext
  s01e09.ext
  s01e10.ext
  s01e11.ext