I've just redesigned my CP on paper, and I can now get a 4 player panel built

To start with, I'm using an I-Pac4 to wire up a pair of Happ Super joysticks and a selection of buttons. Then in a short time, I'll buy two Happ Optical Rotary sticks and extra buttons so I can add in players 3 and 4 to the CP.
The question I have is about the best way to connect the rotary sticks. As I'll need to rewire the I-PAC anyway (to move the super sticks over to players 3 and 4), should I just leave the player 1 and 2 joystick ports on the I-PAC and empty and only connect the rotary sticks to the Opti-Pac, or should I wire them into the I-PAC as well?
Oh, and speaking of these things, I've been searching through the threads about the best way to get two rotary sticks working together, and it seems as if the DOS is the best way. If I use Win98 (booting to DOS), ArcadeOS, and MAME:ANALOG+ is there anything else I need to think about.
TIA
