Extra outlets including USB and networking, and 220 service on the exterior, 7/0 height solid core doors depending on the quantity, 3/0x8/0 hung in pair entry because fuck fighting furniture when moving and welded commercial steel frames at exteriors. Cased openings, no drywall returns on any walls. Build my own cabinets, even expensive cabinets are built like shit unless you want to pay out the ass for high end custom stuff. Full tile master bath with large tiles, no cabinets/closets, I want to be able to just hose the entire room down when cleaning like a locker room shower.
Solid core doors throughout is probably the biggest one of those. Average house doesn't have that many doors, it's not that much more money to have real doors vs hollow core particle board apartment bullshit. At least for swinging doors, wouldn't bother on bypass bifold, etc. Generally only talking ~$100 extra a door on the high end, even if you've got 20 doors you're only talking an extra $2000 at most. I'd also try to make as many openings 3/0 as possible, again just for the sake of making moving anything easier. No doors under 2/8.
Exterior door stuff are the only expensive upgrades on my lists and even then you're only talking 2-3 openings on most houses, it's not a lot of extra money in the grand scheme of building a house.
edit: Oh and when I do custom cabinets, I'd make those fuckers 6" taller than the standard 34" base height. Standard counter height fucking sucks if you're tall. At least anywhere I'd be doing any kind of prep, dishes, etc.