Wouldn't this intergration trap and translate Kickstart calls to the OS's version?
You need to have a full 68K OS for the 68k program so that they can mess around with system structures (which they are not supposed to but Commodore never said not to...)... Then the higher level 68K OS fucntions can be patched to call the AROS native functions, like the windowing system and the input systems... giving the 68k prorgrams the appreaence of running totally nativly... but in fact they will be safely locked inside a virtual sandbox... think OS9 classic on PPC MacOSX