Btw (in response to one of your responders), Gobo Linux seems dead, and I know NixOS is kind of new and experimental (hopefully they can try out some interesting stuff and see how it goes.)
It would be cool if packages could be packaged "upstream" or from the vendor where they could run on most distros because there was enough ABI compatibility that things just worked with these kinds of self-contained packages (if that were the case, more 3rd party paid apps might be release for the platform.)
I think OSX does things kind of like that with .app folders that are self-contained and exist in the /Applications folder off of root (meaning, everything is packaged in the .app folder.)
I never took too close a look at OSX Homebrew, but this seems pretty interesting as well:
I'm not a big fan of the OSX UI (the UI itself is okay, but when I click the green maximize button, I want fully maximized - I also really like the Windows 7 snap feature and cannot live without it on OSX when I am forced to use.) Nor do I like the walled Apple garden. Bring on Wayland and what I imagine will be some great ideas on the desktop once more mainstream (sorry, lots of talented people probably don't want to waste their time on outdated graphic stacks, but once something modern becomes more the norm, watch out, I bet we see some cool stuff -- this is not to say there are not talented people working on Linux desktop stuff, only saying it will be much more appealing once this transition more solidifies.)
But innovation in other means of packaging and all that, bring it on I say. There is room for some really cool ideas. And I think the current directory structure can coexist with something like the above.