Preheat oven to 350 degrees. Line a baking sheet with parchment paper and set aside.
In a medium bowl, whisk together flour, cocoa powder, and pudding mix.
In a separate bowl, use a hand mixer to beat the butter, sugar, and greek yogurt together on high speed until light and creamy. About 3 minutes.
Next, add the eggs, vanilla and milk and beat on high for another 3 minutes.
Slowly add half of the dry ingredients to the wet ingredients and turn the mixer on low for a minute to combine. Next, turn the mixer up to high and mix until combined.
Add the rest of the dry ingredients and repeat until dough is just combined. Do not overmix. Dough will be thick.
Fold in chocolate chips with a rubber spatula.
Drop 1.5 oz sized cookies onto the prepared baking sheet.
Bake for 11-13 minutes, or until slightly golden and just set on the top. Sprinkle with sea salt.
Allow to cool on the baking sheet for two minutes then transfer to a baking rack to cool completely.