As I understand it, the flight decks of American pre-war carriers were made of fir, treated initially with a mahogany-colored (i.e., dark, slightly reddish brown) stain. Shortly before or after Pearl Harbor they were repainted with a new stain that more-or-less matched the Navy's deck blue paint. So iff you're doing a flight deck from 1938, the mahogany color would be appropriate.
A prominent feature of American WWII flight decks was the row of metal thwartships "tiedown strips," which were set into the planking every few feet. Each consisted of a strip of steel with a bunch of u-shaped holes stamped in it. Several aftermarket companies offer flight deck sections complete with planking seams and tiedown strips. One thing I don't know is what color, if any, the tiedown strips were painted before the war. I suspect any paint that was applied to them would get worn off pretty quickly; a dull gun-metal color might be as good as any.
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