Disabling the main quest doesn't help much for mods which may require you've completed it. Like Verona House.
There was a mod once that supposedly went through and set all the quests done as though you'd done them yourself, but I doubt very much that every last necessary detail was covered. Getting something that immense right would be a massive undertaking. Searching dialogue, triggers, quest stages, and everything else to make sure all the flags are properly set just doesn't sound like a lot of fun to me