It depends also on what mods ,if any,you are using.With GW and NYGM ,you can only sink the ships if you blast them below the waterline.If you play vanilla SH3,you can blow them up by hitting even the command deck.It is best,however,to blast the ship under the waterline,and concentrate fire on the cargo/ammo/fuel bunkers,since making these explode will most of the time make the ship go straight down to a watery grave.
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Came back after a long time ...ahoy mates!
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