I ended up going to the junkyard and sniping out some wiring and connectors to make a patch harness so I could fit it into my car and easily remove it if I ever needed to.
You can see my harness hooking into the car's harness and coil in this picture:

I mounted the MSD unit between the firewall and the strut tower on the driver's side. It just barely fits in there. Its secured with some self taping screws with some rubber grommets to negate any vibration. There is also a little rubber under the unit to add some cushion below and between the hard lines that are under the unit.

I wired the posative line to the battery and then the negative line I grounded on a bolt behind the washer fluid bottle between the firewall and the bracket for the fuse box.

So far I haven't noticed too much of a difference, but I haven't had much time with it, yet. I'm expecting the fuel economy to go up a little.
My reason for upgrading was to help with smog. I failed the idle test in CA surprisingly. I've never failed before, and it has never been close to failing. My guess is it had to do with me running colder plugs (7E-11s vs 6E-11s). Also, I haven't had to smog it yet since putting in the rob-tuned ECU, so that is also an unknown deal. So between the plugs, ecu, injectors, etc, there was a lot of factors that could have caused the change. My figuring: changing the plugs back to the normal heat range and beefing up the ignition should help the idle emissions drop quite a bit. Here's hoping.
I'll have an update tomorrow as I go to smog it.
-Ryan