Preheat and Prep: Preheat your oven to 350°F (175°C). Line a 12 cup muffin tin with paper liners or grease generously with non stick spray. Set aside.
Melt Base: In a large microwave safe bowl, combine the sugar, softened butter, and water. Microwave in 45 second increments, stirring well after each, until the butter is completely melted and the mixture is smooth.
Add Semi Sweet Chips: Add the 1 cup of semi sweet chocolate chips to the warm butter mixture. Stir continuously until the chips are fully melted and the mixture is smooth and glossy. If needed, return to the microwave for another 15-20 seconds to finish melting.
Add Wet Ingredients: Let the mixture cool for a minute, then stir in the egg and vanilla extract until well combined.
Add Dry Ingredients: Sprinkle the flour and baking soda over the wet mixture. Stir gently with a spatula until just combined. Be careful not to overmix.
Cool Batter: Allow the batter to cool for 5-10 minutes. This prevents the next addition of chocolate chips from melting completely.
Fold in Milk Chocolate Chips: Gently fold the ¾ cup of milk chocolate chips into the cooled batter until evenly distributed.
Fill Muffin Tin: Divide the batter evenly among the 12 prepared muffin cups, filling each about ¾ full.
Bake: Bake for 14-16 minutes, or until the tops are set and a toothpick inserted into the brownie part (not the center) comes out with a few moist crumbs.
Create Wells: Remove the pan from the oven and let it cool on a wire rack for 5 minutes. If the centers haven't naturally sunk, use the back of a teaspoon to gently press down into the middle of each brownie bite, creating a small well.
Add Peanut Butter: Place the ½ cup of creamy peanut butter in a small microwave safe bowl. Microwave for 20-30 seconds until warm, creamy, and pourable. Spoon about 1 tablespoon of the melted peanut butter into the well of each brownie bite.
Garnish and Cool: If desired, top the peanut butter with a few extra milk chocolate chips. Allow the brownie bites to cool completely in the pan before removing and serving.