Real talk, they won't take away what people already have. That would piss off too many people to be worth it. You don't have to own multiple houses to be sympathetic to someone getting told to choose their favourite one because the rest are going to be sold to other people. But I wouldn't be surprised if they added restrictions going forward since, as others have said, it's not an IDEAL solution but it's easy, sensible, and will address some of the biggest issues right away. Hard to hoard or flip houses when your account is flagged for already owning a personal and an FC residence. If you see a ton of empty lots, help your friends get the home of their dreams! (You do have friends, right? :P)

OP wants SE to revamp the system entirely. That's fine, except the amount of resources that would take is probably not feasable. It's a design flaw that arose from good intentions but short-sighted implementation; originally being in an FC was the only way to get a house, but people wanted personal homes and SE caved to that pressure without adding extra space until much later. We've been dealing with the ramifications for a long time but it all came to a head in 4.1... and now that there's a ton of disappointment and ill-will going around they're finally getting off their butts and doing something about it.

For what it's worth, I don't really have a horse in this race. I have the home that belongs to my FC and that's it. I considered getting a small in Shirogane for myself and had the gil for it saved, but I'm glad I didn't try to go for one after seeing the fallout from that mess. If they revamp the housing system and make it so the plots aren't all snatched up within 10 minutes of servers going live somehow I might try for real though.