Preheat oven to 350°F. Grease or line 2 baking sheets with parchment paper.
In a small bowl, mix together the flour, baking soda, baking powder, and salt. Set aside.
In a large bowl or stand mixer, cream together the butter and sugars (for about 5 minutes). Add the non-dairy milk, vegan egg, and vanilla extract and mix until combined.
Slowly add the dry ingredients and mix at low speed until a dough forms, do not overmix. Fold in the chocolate chips.
Take a heaping tablespoon of dough and form into a ball. Place them 2 inches apart on the baking sheets. Sprinkle sea salt on top. Bake for 16-18 minutes. Let rest on baking sheet for about 5 minutes before transferring to a wire rack to finish cooling.