"and in fact if I install 68k software using Installer will it install files over AROS native files?" I do not understand. For software it is feeling like a normal 68k environment and it is no problem to install 68k software there. I do not know the 68k integration in Icaros but when it is similar to WinUAE then you work in your own environment and not mixing it with the X86 outside world.
To my understanding I could run (almost) any 68k software from AROS desktop just by doubleclicking on its icon. I dont care what executes the software in the background as long as it feels like native one sharing clipboard, screens, whatever.
You cannot destroy Windows by installing amiga-software. All other concepts would be extremely dangerous. You cannot mix X86 and 68k libs.
On Amithlon you can
@tmhgm
They are UAE emulation boxes. On the other hand as long as emulation boxes are hidden under the hood it doesnt matter how it is implemented.
But indeed it is not seamless and transparent like it is in MOS/OS4. To AROS users 68k support is running 68k software directly from Wanderer, to OS4/MOS user 68k support is installing 68k components as part of your system.