From what I understand, working with a nearby dealer who actually only charges MSRP (technically slightly below MSRP, but close enough), the reason for this is basically that Toyota doesn't do custom builds based on a customer's order because it saves them from having to retool lines or prevent mistakes from switching builds constantly as much as possible. So it really sort of is what they get is what they get. That said, it does really suck to deal with dealers that upcharge for no reason. Thankfully I think I managed to find a dealer which is about as close to dealing directly with Toyota as one can get. (Been waiting for the car I want, but may just end up buying a used car due to the long wait, which sucks but I can't fault the dealership for.)