I doubt we will see much that bangs the hardware in the old fashioned sense, we are probably a decade to late for that to be much of a success. But I do expect SAGA to get a lot of easily converted opensource ports from linux and windows, blender, browsers, various emulators etc.
The Windows and Unix environment lacks the low latency architecture of AmigaOS because they for one thing operate in protected mode and uses kernel APIs.
Software doing the assembler pook & peek will still run circles around other other programming methods. It's rather different than "too late". If you want to put the effort in to code is another story

I think RTG might be a way around software compatibility.
What do you think of AROS 68k ?
I have the sneaking suspicion that NatAmi is going to be very expensive though.
I think it will be late to the party and expensive. And liable to any whims from Altera.