The ability to select which mods to include in an individual map when you make a new game.
The ability to view a list of mods in the game with a description of each which lets you to automatically download and install mods and update mods.(Kind of like repositories in GNU/Linux)
Mod Packs: Groups of mods that work well together, are related, and are of good quality.
The current way the mods are set up are way too fragmented and redundant.