I completely agree. If only Windows also had WinKey+C/X/V as shortcuts, it would make so much sense in other Windows software too. Same with ALT+TAB and ALT+F4, CTRL+SPACE etc, these should also be handled by the win key. Then the Win/Cmd key would be assigned to OS functions, and the rest of them could be assigned to application functions, providing a clean separation.

Ctrl is different. Alt and Win don't cancel themselves when released, they are modal, and modal sucks. Ctrl is the only safe key besides Fn, so repurpose Fn if you must.