in your post you used: "-joyport1 pad" and "joyport2 pad"
you have to have a dash in front of joyport2 like -joyport2 pad
if you can't get it from the command line, you can always set it from slot devices menu (which will give you the names of each slot option which you can use on the command line) and choose reset
so for example: this would correspond to command line options of:
-joyport1 joy -joyport2 pad
On the command line, you don't need quotes. "-joyport2 pad" won't work since it treats it as a single item.
You can "blank" an option with quoles like this: -joyport2 "" which will set joyport2 to empty.