Preheat oven to 375°. Line four cookie sheets with parchment paper. (If you don't have four cookie sheets, see notes below).
Mix dry ingredients (flour, baking soda, baking powder, and sea salt) in a large bowl.
In the bowl of a stand mixer, cream together the butter and sugars. Add in the eggs and vanilla. Beat until light and fluffy, about 2 minutes.
Add in the dry ingredients and mix until just combined. Remove bowl from the stand mixer and stir in the chocolate chips.
Using a 1 1/2 Tbsp cookie scoop, gently roll one scoop into a ball with your hands then place on the baking sheet. Bake in the oven for 8-10 mins until the edges are starting to crisp, but the middle still looks gooey.
Remove from the oven and sprinkle with the sea salt flakes. Cool on the baking sheet for 2-3 mins and then move to a cooling rack to cool fully.