When adding mods via \Mydocuments\ARMA 3\@mod name and using the in game 'Expansions' menu option to enable / disable mods - mods fail to be uninstalled completely and are still listed as active expansions.
Even if you remove the @mod folder from \Mydocuments\ARMA 3\. This creates issues with mods often being double listed in the expansions folder if they are added back.
There also needs to be a method listing mods that are incompatible with other mods to prevent killing the game. This requirement is essential given how dependent ARMA3 is on the modding community to 'add to or improve on' the vanilla game.