Here's my take on a True20 Davy Jones. This is, of course, subject to change based on anything new we learn about him in the next film.
I figure that his cephalopoid head, despite having the ability to manipulate small objects, is mostly a cosmetic change as is his tentacle finger. As for traits from the Sea-Claimed template, he most obviously has Lobster Claw, Sea Slime, and Shellfish Patches.
I also didn't go into detail regarding his ability to call and direct the Kraken. He uses the Kraken-Hammer on the Flying Dutchman to summon it, and it goes after anyone with the Black Spot. That's mostly plot-oriented, and doesn't need much more detail than that, IMO.
His "Apply Sea-Claimed Template" trait is fairly self-explanatory as well.
DAVY JONES
“Let no joyful voice be heard! Let no man look up at the sky with hope! And let this day be cursed by we who ready to wake the Kraken!”
Role: Male Human Exp8/War5 (Aquatic, Augmented Human)
Conviction: OOOOOOOOO
Speed: 30 ft., swim 15 ft.
Abilities: Str +1, Dex +2, Con +3, Int +1, Wis +3, Cha +2
Skills: Acrobatics 10 (+12), Bluff 8 (+10), Climb 5 (+6), Diplomacy 8 (+10), Drive 8 (+10), Escape Artist 8 (+14), Intimidate 11 (+13), Knowledge (earth sciences) 9 (+10), Knowledge (supernatural) 9 (+10), Knowledge (theology and philosophy) 6 (+7), Notice 10 (+13), Perform (pipe organ) 8 (+10), Search 10 (+11), Sense Motive 10 (+13), Swim 8 (+17)
Bonus Feats: Improved Grab, Weapon Training
Favored Feats: Jack-of-All-Trades, Tough
Feats: Attack Focus (Cutlass), Attack Specialization (Cutlass), Chokehold, Diehard, Dodge Focus 2, Firearms Training, Great Fortitude, Improved Critical (Cutlass), Inspire (Fear), Jack-of-All-Trades, Lightning Reflexes, Seize Initiative, Tough 2, Uncanny Dodge
Core Ability: Expertise
Powers: Rank 16, Wis, fatigue Difficulty 17, power bonus +19; Nature Reading, Phasing, Teleport
Traits: Amphibious, Apply Sea-Claimed Template, Bestow the Black Spot, Immortality, Lobster Claw, Sea Slime, Shellfish Patches (25% to ignore critical hits and sneak attacks)
Combat: Attack +13 (+11 base, +2 Dex) (+14 with cutlass), Damage +2 (claw) or +4 (cutlass, crit 17-20), Defense Dodge/Parry +13 (+15)/+14 (+11 base, +2 Dex/+1 Str), Initiative +2
Saving Throws: Toughness +7 (+3 Con, +2 Tough, +2 natural), Fortitude +9 (+4 base, +3 Con, +2 Great Fortitude), Reflex +7 (+3 base, +2 Dex, +2 Lightning Reflexes), Will +9 (+7 base, +2 Wis)
Virtue: Honorable; Vice: Cruel
Immortality: Davy Jones is immortal, and can only be slain if his heart is destroyed. He is immune to lethal damage. Any attack that would normally deal lethal damage instead deals non-lethal damage to Davy Jones.