A MUCH lesser degree, but it's probably because many early aviators were never sailors.

That said, much of the nautical terminology and identification can be attributed to naval traditions thanks to Juan Trippe (Pan Am); He was absolutely enamoured with oceanliner travel, and the fact that his aircraft at the time were water-based as well.

Some examples:

• Nautical miles are a standard unit of measure for both ships and planes, as it the equivilant of one minute of one degree at the equator.
  
• Most all transportation, most importantly ones that cross time zones, use GMT as a time basis on the operational side to avoid confusion and keep things consistant. This morning, my LAX-SLC flight departs at 1545Z, and arrives at 1730Z. Back in the 1800's, trains operated solely on EST to keep things consistant.
  
• Planes use the same lighting scheme as ships, mostly out of tradition, with the anti-collision light on aircraft one main difference; red on the left, green on the right, with white lights facing aft.
  
• Cabin, lavatory, galley, stow, and crew all come from ships.
  
• Also, flight planning and voyage planning are nearly identical, minus taking into account sea and air anomalies.
• Some airlines name their planes as well, such as jetBlue and the Virgin Group. Pan Am did it back in the day.

As for the exceptions, aviation broke away from standard nautical terms for some items; left and Right is a big difference. When you board a plane, you do not embark it, and when you de-plane, you do not disembark. Ships bunker, and planes refuel.

I could go on an on here, but considering the two different modes of travel, they both share a lot in common, as they both do one thing: transport you from point A to point B through a large expanse of fluid.