[2] In such cases, the snorkel supplies air for both the engine and the sealed crew compartment, allowing total submersion.
In the case of a World War II-era amphibious Jeep, all of the engine openings and electrical wiring are sealed, and the driver must first operate a damper that prevents water from entering the intake manifold.
The snorkel is typically routed out through one of the front fenders or directly through the hood, and up beside the "A-pillar" to the level of the roofline where it is terminated with either a mushroom intake or a forward-facing intake, although a simple aftermarket cone filter on the end of a flexible length of plastic tubing works just as well (it is also possible to simply run the tubing directly to the factory air-filter box).
Although most external system wiring on modern vehicles is quite well sealed, it is usually wise to use additional sealing on computers, fuse boxes, etc., and interior electronics such as radios and entertainment systems (not to mention digital dashboards) are generally not waterproofed and will be ruined by water entering the vehicle.
It is also important to install extended ventilation lines to the axles and transfer case; these typically are no more than a foot or so long, and will allow water to contaminate the lubricants.