iOS 10.3 with APFS has been in public and developer beta for several months - it's up to beta 7 right now in fact. If this were as vast a problem as Micheal Tsai presents in this post, wouldn't we (the devs and beta testers) be running in to this a lot?

Given how loudly the tech press proclaims any perceived mis-step by Apple, I'd have to believe we'd have been reading tons of 'Apple is Doooooooomed' articles about this by now. Given that this hasn't happened, and I haven't seen similar problem reports on dev forums and other hangouts, I'd lean towards there being some miscommunication or misunderstanding here.