V. That Man that shall strike another whilst these Articles are in force, shall receive Moses’ Law (that is, 40 Stripes lacking one) on the bare Back.VI. That Man that shall snap his Arms, or smoke Tobacco in the Hold, without a Cap to his Pipe, or carry a Candle lighted without a Lanthorn, shall suffer the same Punishment as in the former Article.
Yer looking for pipes with a covered bowl - still used today by sportsmen, sailors and many places in Europe, the Middle East and Asia. In fact on ships they were written into "the code" or "articles" (as above - from Capt. John Philips of The Revenge
Covering a pipe's bowl had the obvious benefit of keeping the burning embers from blowing out - a common problem especially if the contents were not properly tamped (compressed into the bowl before lighting with a small tool or a finger - helps burn longer too). It also kept the pipe burning longer as the wind would not increase the rate of burning. Covered pipes may have originated in the North Africa, Middle East and throughout Asia, so they would have come to sailors early on from the marketplaces near the coast - especially throughout the Mediterranean.
This site has an entire museum of pipe history and several example of bowl covers from the plain to the very elaborate. http://www.pijpenkabinet.nl
also here http://www.kalyna.ca/pipes.htm
In the day (as today) pipes would have been hand carved of hardwoods, meerschaum (a mineral that floats in the Black Sea), bone, or formed of clay (though these were somewhat impractical at sea).
Lighting pipes would often be done with a "punk" lit on a candle (the same way ye'd light a cannon fuse). A punk was often a piece of tightly wound hempen cord dipped in tallow...a bit like a candle wick. The spark from a small bit of flint and iron could light a pipe, though more difficult. A small protected fire was often kept burning (on deck) for such things in a covered bowl (about the size of a half coconut).