I thought of Sailor Moon when I saw your heading of "Badass Sailors" lol.
Peter and the Starcatchers. LOVE that book!!Also, Vampirates. I am not sure if Vampirates is any good, but it takes place on the sea!
LOL @ Sarah.It's not YA -- far from it, in fact -- but Kristan really loves the book MONSOON by Wilbur Smith. Sailors, pirates, England, Africa, India, adventure, battles, love, sex... it's got everything!
I LOVE Piratica. Seriously, those books are amazing! I really need to read the Bloody Jack series. As for recs, I've heard Peter and the Starcatchers is great. (The show is incredible.)
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