Preheat the oven to 375°F and line an 8×8-inch baking dish with parchment paper.
In a mixing bowl, whisk together the coconut oil, egg, and vanilla extract until smooth.
In a separate bowl, combine the sweetener, almond flour, coconut flakes, and pecans. Stir until evenly mixed.
Add the dry mixture to the wet ingredients and stir until combined.
Spread the batter evenly into the prepared pan.
Bake for 22 to 25 minutes, or until the edges are golden brown.
Remove from the oven and sprinkle the chocolate chips evenly over the top. Return to the oven for 2 minutes, then remove and spread the melted chocolate into an even layer.
Sprinkle flake salt over the chocolate while it is still soft.
Let the bars cool completely before lifting them out of the pan with the parchment paper. Cut into 12 squares and serve.