Preheat oven to 375 degrees F (190 C) and line 12 muffins with paper liners, or spray with non-stick spray.
In a large bowl, whisk together the applesauce, maple syrup, peanut butter, brown sugar, baking soda, and salt for 45 seconds.
Stir in the almond milk and whisk once more.
Sift cocoa powder and flour over wet ingredients and stir with a spoon or spatula until just combined. Make you you don't over-mix. You want to mix until just combined.
Fold in 1/2 cup chocolate chips.
Batter should be quite thick, but not pourable. Use a scoop to add the muffin batter to the muffin tins and fill 3/4 full and sprinkle with a few more chocolate chips or peanut butter chips on top if desired.
Bake for 17-22 minutes or until a toothpick inserted into the center comes out clean.
Let cool for a few minutes in the pan, remove from tins and let cool on a cooling rack.