Clipping the wires to bump the ECU is nearly impossible to get wrong and they are not considered to be important. Especially if you follow DFW_Warrior's instructions.
http://rswarrior.com/forums/p/48956/688468.aspx#688468
I did the bump for a short time after changing my exhaust. The only thing I did different was use a connector to ground instead of an aligator clip. Arrizona_Warrior (i think) used a switch.
I didnt get to play around with the ECU Bump too much before I found a great deal on a used PCIII. I havent had it dyno tuned yet but I have adjusted the fuel mixture and have reduced backfires.
Power Commanders are expensive. If I had to pay full price...I still wouldnt have one. You can get by without it until a deal comes along.