Sorry if this is the wrong place to post it or if this has been posted (initial search didn't show it to me):
In OMSI 2 each bus needed the depot (.hof) file in it's own folder. My suggestion for LOTUS would be to have some kind of centralised depot files (maybe in the map folder/linked to map). To cope with the logic that if some bus require some specialised version of it, then add option to link extra depot file kinds to the map. I'm not excatly sure yet how the LOTUS mods work but in OMSI terms in map folder I would have extra folder:
config file for example would look like this (which woulds specify which bus uses which special hof, it bus isn't in the list then revert to default depot file
I hope it's not too confusing to understand what I tried to suggest here.