Similar to the parameters for missions on the Multiplayer screen, something can be done to change those configs directly in the game?

AND\OR

Add a page to configure the mod you are using. For example the TMR mod: http://forums.bistudio.com/showthread.php?160054-TMR-Modular-Realism

Once it is activated in the "Expansionss" menu it unfolds in many modules, cluttering the whole thing, could be solved now as probably many mods will be somewhat modular.