Sorry, this is a bit vague. Are you talking about the way that Stencyl is distributed, or are you talking about distributing your games to other people?
For distributing your game to other people, Stencyl can export a .app container for macOS, and a .ipa container for iOS. After that, it's up to you to use the iOS App Store or Mac App Store to distribute your game.
There's no difference between Mac Mini and any other Mac hardware that's relevant to publishing Stencyl games.