Prepare the Baking Pan: Preheat the oven to 350°F (175°C). Line a 9 × 9-inch baking pan with parchment paper, covering the bottom and sides. Set aside.
Mix the Brownie Batter: Prepare the boxed brownie mix according to the package instructions. Pour the batter into the lined pan and use a rubber spatula to spread it evenly into the corners and along the sides.
Partially Bake the Brownies: Bake the brownie layer for 15 minutes, then carefully remove the pan from the oven. The brownies will still be raw in the center, but the surface should be set enough to support the pecan topping. Allow them to cool slightly. Prepare the Pecan Filling: While the brownie layer cools, combine the honey, packed light brown sugar, room-temperature egg, melted butter, vanilla extract, and salt in a medium bowl. Whisk until the ingredients are well combined, then gently fold in the roughly chopped pecans. Add the Pecan Topping: Once the brownie layer has cooled slightly, pour the pecan mixture evenly over the surface. Use a spatula to spread the filling gently across the brownies, taking care not to press it deeply into the partially baked base.
Finish Baking: Return the pan to the 350°F (175°C) oven and bake for another 20 minutes, or until a knife inserted into the center comes out mostly clean.
Cool Completely: Remove the pan from the oven and let the brownies cool completely to room temperature. This allows the pecan topping to set and makes the brownies easier to slice.
Slice and Serve: Cut the cooled dessert into 16 brownies. Serve and enjoy the combination of fudgy chocolate and sweet, crunchy pecans.