I've played previous versions of M4-78 and, while I did not notice many changes with 1.3, several of the quests seemed clearer to follow (although that might just be because I know where to go and what to do).
The one thing I definitely noticed was the industrial zone loading area was better. Far less lag when opening the boxes and moving the escort droid out of the corner is good.
I had no issues with the mod (apart from the weapons mod one I reported in the bug thread) and can't really suggest any changes or improvements. Great mod, good quality and really enhances the game.