Yes, with the AC2 you can still have communication with your PC, and have a functional switch input. You must leave leave the external switch out signal connected to pin 8 of the DB9 connector or the isolator will not work. If you already have one of our serial cables, just open the DB9 end and attach your switch wires to the brown wire (connected to pin 8), and the unattached external in wire (usually red in our cable).
We don't sell the I/O box anymore - that should have been removed from the 3 Pro manual. Yes, on the 3 Pro the two wires from the external switch connect between the ground pin and one of the 4 input pins. You can connect up to four switches to the 3 Pro. If you can't find a minidin 8 connector, we sell them for $5.00.
Curt