Not a stupid question unless you already know the answer.
There are two large wiring harnesses connected under the tank. When you split the connectors you have four connectors. Each one gets connected to one of the connectors on the PCV. Don't worry, you can't connect them incorrectly because they are all different. The other one is the power connection under the seat and there is a black ground wire.
I think there are installation instructions on the powercommander.com website.