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Preheat the oven to 350 degrees F.
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Line 12 muffin cups with paper liners and set aside.
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In large bowl, combine 1/2 cup peanut butter and softened butter and beat well until combined.
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Add brown sugar and sugar and beat until light and fluffy.
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Add eggs and vanilla and beat well.
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In sifter or sieve, combine flour, cocoa, baking powder, and baking soda.
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Sift into peanut butter mixture; add milk, and stir until batter is smooth.
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Fold in 1 cup chocolate chips.
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Spoon batter into prepared muffin cups.
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Bake for 20-25 minutes or until muffins spring back when touched in center.
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Remove to wire racks to cool.
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In small bowl combine 1/2 cup chocolate chips with 2 tablespoons peanut butter; microwave on medium power for 1 minute, then remove and stir until smooth.
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Frost muffins.