VORTECH INSTALL HELP!

Im installing a Vortech HO kit. It is the V-2 with the boost cooler kit. Okay everything is good to go. I did not send my ECU off to Vortech, because I bought the kit used and I was told It can be tuned through a dyno. Now my problem is, routeing all the vaccum hoses and bypass valve(s). The book is getting a little confusing to me. I have two hoses going from the discharge tube (the black tube mounted on the supercharger going to the mass air) One hose gose to the valve cover on the drivers side, the other seems to go to the idle air valve. Then I have another hose leaving the discharge tube at the end of that hose is a bypass valve and it has a 90 degree bend that connects to the pipe in between the throttle body and boost cooler. In the book It says there should be another bypass valve hooked up on HO models but it dose not say or show where. I started the car and it idels extremly ruff and keeps backfireing! It is a 2002 gt any suggestions?

thanks

Well I got everything hooked up right and started the car and it idles like its camed. Not to add that its pouring whiteish greyish smoke out the exhaust. I had a "Certified Vortech Installer" come pick up the car today, and as he was pushing it onto the trailer, the car ran into the trailer ramps and tore my (just purchased) 03-04 cobra front bumper off completly and messed up the bumper brackets! He says he has extra bumpers laying around and will fix it?!???????!?? Besides that he said the smoke is oil and gas mixture. Because I did not send the ECU to Vortech! But he plans on dyno tuning it and putting on a smaller pulley and installing the menthanol water injection all for $600. Also the price will probaly drop because my friends are bringing there mustangs to get tuned as well (04 cobra comp. orange ported blower etc.) (00 GT V1 vortech) Do you guys think $600 is too high ?