Some Win10 programs ignore key/mouse events?

This is strange. Maybe someone will understand what the hell I'm talking about. I use AutoHotKeys to remap my windows key, and use Logitech Setpoint to map the middle mouse button to close the currently focused program. This worked fine in Windows 7.

Now with Windows 10, it works "most" of the time. For all program like Firefox and File Explorer and whatnot its fine - when I click the middle mouse button the window closes, and when I click the windows key it does the remap I want. But for other focused programs, like notepad.exe, regedit and compmgmt.msc snapin these events don't work now. The middle mouse click won't close the window and the windows key just acts normal with the AutoHotKey mapping ignored.

Anyone know why this is happening? Its very strange. Its like all Windows 10 program have been recompiled for the Windows 10 release obviously, but specifically these Win10 programs seem to be one step above the internal windows message queue maybe any ignoring these message or not seeing them?

I'm surprised no one else has seen this. Thanks for any input.

I suspect that this is to do with Windows 10 using the new Universal Windows Platform (UWP) for the new W10 apps but I'm afraid I do not know enough about the differences to be able to help you further.

That sounds accurate, if there is some new API then that is it. Setpoint, AutoHotKeys and like probably every program like those in the world need to be fixed now actually. How no one knows this is beyond me.