Does it say it is an engine shampoo? If so, it is safe to use. Keep in mind though the stuff is pretty harsh, so leaving it on for less time than recommended isn't a bad idea. It is petroleum based, so it is easily displaced by water and is why you apply it to a dry engine. Just use a light stream from a garden hose to rinse it off, not a high pressure washer. The weatherpack fittings on the new cars are pretty good. Most of them triple seal and are held on by a clip too.
The only real part you should cover up is your ignition coil (where all the spark plug wires originate from). Usually the airbox opening is well protected and the duct is behind a headlight or fender, but if not, cover it up with a plastic bag.