Yes your up-pipe gets drilled. Nozzle is usually placed on the side of the pipe, turbo side, someplace where it straightens out before the throttlebody.
As far as the in-car controller, the brainbox can go wherever you want, hidden or not, your preference. I personally have mine somewhat hidden in front of where the heater duct blows on the floor.
The small controller (with the gain dial & test button) most people wedge them between the padded part the dash that houses the speedo & the padded part that houses the radio/heater. I have mine velcro'ed as low as possible on the padded part that houses the radio/heater. It's pretty well hidden there, but yet I can see it perfect from the drivers seat.
I can PM or email you pics if you want.