Just got an agility dagger drop from Beast of Bastion today and equipped it. Now Lava Lash and Stormstrike are greyed out and the tool tip says Requires One Handed Melee Weapon to be equipped. If a Dagger’s not a One Handed Melee Weapon, then what?
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Daggers are their own category.
One-handed melee weapons are one-handed maces, one-handed axes, fist weapons, and one-handed swords. But Shamans can’t use swords (class limitation) so remove that from your list.
Agility daggers are strictly for two Rogue specs: Assassination or Subtlety. Even Outlaw rogues, who can use all one-handed melee weapons in that list, can’t use agility daggers in their main-hand, since doing so blocks some of their special attacks.
You have a useless weapon. The only Shaman specs that use daggers (in other words, daggers are compatible with their rotation) are Restoration and Elemental, and they need Intelligence weapons (for stats), not Agility.
Editing to add: Since you don’t identify the dagger, I can’t be sure that it’s useless for Elemental or Restoration Shamans. Many weapons have both “caster and physical” attributes, such as having both +Int and +Agi and automatically selecting one or the other depending on spec. That dagger may be OK for a caster Shaman. Especially if it’s personal loot of some kind, which is always supposed to be useful to at least one spec of your class.
Same, cannot cast Stormstrike or Lava lash with agi daggers equipped. As an enhance shaman, daggers are listed in weapon skills, Flametongue & Windfury buff them yet the two abilities are grayed out. I’m not sure how an agi dagger (ceremonious shankers) would not be considered a melee weapon. Seems like it’s more of a bug on their part.
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It’s intentional. If you look at the in-game “Preferred Weapons” blurb about the Enhancement spec, you’ll see the list I gave earlier, complete with very pointed absence of daggers.
“Preferred” means “use these weapons if you prefer your special attacks to work.” 
This was a deliberate change introduced as part of Warlords of Draenor, when weapons were “rationalized” and a lot of flexibility in gear choices went away.