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Preheat oven to 350° F.
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Prepare nine muffin cups by lining with muffin tin liners or coating with spray. Set aside.
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Combine cream cheese and maple syrup in a small bowl; mix well. Set aside.
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Combine egg and pumpkin in a medium bowl; mix well. Set aside.
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Combine almond flour, baking soda, and salt in a medium bowl; mix well.
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Add almond meal mixture to egg mixture; mix until just blended.
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Spoon batter into each prepared muffin cup, filling a little less than ½ full.
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Spoon about 1 heaping tsp. cream cheese mixture into the center of each muffin. Evenly fill muffin cups ¾ full with remaining batter.
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Sprinkle muffins evenly with pumpkin seeds.
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Bake 18 to 22 minutes, or until golden brown and toothpick inserted into the center comes out clean.
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Transfer muffins to rack; cool.