Crypt Slicer is in the list four times, and the four are different weapons.
Two things vary between rows of one weapon, and each row says which it is: the proficiency level, in the badge at the top right of the sprite, and an elemental imbuement, in the coloured dot at the bottom left and the pill beside the name.
Read down and the proficiency level climbs. Read across the middle and the weapon is imbued — where the attack value visibly splits, half the physical becoming earth.
Proficiency
Only the levels worth grinding to are listed. The tree has seven, most of them small, and all seven would bury the list.
A perk counts only where the level offers no alternative — one you pick among two or three belongs to some builds and not others.
The prize for a damage build is elemental piercing, and full value is only paid up to neutral. So it is worth most where your element is currently resisted, and half wasted where the creature is already weak to it.
The Crypt tree offers armor penetration on the same levels as piercing, so the two are exclusive: a plain build takes the penetration, an imbued build takes the piercing. Both are in the list.
Imbuement, and Elemental Bond
An imbuement moves half the physical attack into its element — 58 physical becomes 29 physical and 29 earth. Nothing is gained or lost in total; it is the same attack pointed somewhere else. A large gain against a weakness, half a weapon thrown away against an immunity.
Elemental Bond is not the same thing. It moves all of the attack, and it is a property of certain fist weapons rather than something you apply — so there is no physical half to fall back on, which is exactly what an imbuement keeps.
3 Crypt Slicer (Proficiency 3) 58 physical
5 Crypt Slicer [Earth] (Proficiency 5) 29 physical + 29 earth