Update - with the downloaded file from SkyrimNexus:
Replace the last two characters only of the second scan code for the hotkeys with ff.
i.e.:
Hotkey1 0x02,0x4f 0xff 0x0004 0 0 0 0x908Hotkey2 0x03,0x50 0xff 0x0008 0 0 0 0x908Hotkey3 0x04,0x51 0xff 0xff 0 0 0 0x908Hotkey4 0x05,0x4b 0xff 0xff 0 0 0 0x908Hotkey5 0x06,0x4c 0xff 0xff 0 0 0 0x908Hotkey6 0x07,0x4d 0xff 0xff 0 0 0 0x908Hotkey7 0x08,0x47 0xff 0xff 0 0 0 0x908Hotkey8 0x09,0x48 0xff 0xff 0 0 0 0x908
becomes:
Hotkey1 0x02,0xff 0xff 0x0004 0 0 0 0x908Hotkey2 0x03,0xff 0xff 0x0008 0 0 0 0x908Hotkey3 0x04,0xff 0xff 0xff 0 0 0 0x908Hotkey4 0x05,0xff 0xff 0xff 0 0 0 0x908Hotkey5 0x06,0xff 0xff 0xff 0 0 0 0x908Hotkey6 0x07,0xff 0xff 0xff 0 0 0 0x908Hotkey7 0x08,0xff 0xff 0xff 0 0 0 0x908Hotkey8 0x09,0xff 0xff 0xff 0 0 0 0x908
And this will allows you to bind the numpad keys, though it will show the scancode instead of the key name, it works.
I will update if I get other things working.