Cylinder Numbering (front to rear): Driver's Side 4-5-6; Passenger Side 1-2-3.
Base timing: 10 degrees BTDC (non-adjustable).
Firing order: 1-4-2-5-3-6.
Also, keep in mind that the EDIS ignition on the 3.0L vulcan fires the 1 and 5 cylinders at the same time, the 2 and 6 cylinders at the same time, and the 3 and 4 cylinders at the same time. The reason for this is because the 1-5 plugs are in series, as are the 2-6 plugs and the 3-4 plugs, respectively. Here is a nice diagram of that (thanks to Bob Ayers for providing it):
Thanks for the info Rockledge. I just wanted to double check this. I had it wrong the first time, started it up, ran it around the block and it was misfiring. Figured I had the wires on wrong (I apparently did not pay close enough attention when putting them on the first time). Now, it is still running very rough even with the wires on correctly (no more misfiring). Could I have possibly damaged the plugs or wires again? Maybe something worse?