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    Home » High Protein Recipes » High Protein Cottage Cheese Lemon Muffins

    High Protein Cottage Cheese Lemon Muffins

    Published: Jul 21, 2024 · Modified: Jul 3, 2025 by Cathy Chenard · This post may contain affiliate links. As an Amazon Associate I earn from qualifying purchases.

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    These high-protein cottage cheese lemon muffins are so tasty you'll forget they're healthy, low in carbs and high in protein!

    Protein lemon muffins on a plate and one cut open to show light and airy inside

    These high-protein cottage cheese muffins are deliciously moist, light, airy and burst with bright lemony flavor, thanks to fresh lemon zest and juice. To keep these muffins refined sugar-free, we use monk fruit with erythritol as an alternative sweetener, but you could use another sweetener of choice.

    And since they're packed with protein, they'll help keep you fueled between meals or until your next meal. Quality protein sources include low-fat cottage cheese, which produces moist muffins, and vanilla whey protein powder, which creates a light and fluffy texture.

    These high-protein cottage cheese muffins are an ideal breakfast, post-workout treat, afternoon snack or dessert.

    Key Ingredients

    Almond flour: Be sure to use blanched, super-fine almond flour in this recipe.

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    Low-fat cottage cheese: We use a low-fat cottage cheese (2% milkfat) in these muffins to increase the level of protein and produce deliciously moist muffins. Our favorite brand of cottage cheese is Good Culture.

    Sugar-free sweetener: We use Lakanto monk fruit with erythritol as an alternative sweetener, but you can use another sweetener of choice. Other sugar-free options could include erythritol, allulose, etc. Just be sure to check out this sweetener conversion chart.

    Low-carb vanilla whey protein powder: We use low-carb vanilla whey protein powder to increase the protein in these muffins. Our favorite vanilla protein power is Quest Vanilla Milkshake, but you can use another brand of choice.

    Lemon zest and juice: You'll need a fresh lemon for lemon zest and juice. Lemon zest and lemon juice create a perfect lemony flavor.

    How to Make

    STEP 1: Pre-heat oven to 350 degrees F and line a muffin tin with paper liners or lightly grease it.

    STEP 2: In a food processor, pulse cottage cheese until smooth. In a large bowl, combine the cottage cheese, eggs, lemon juice, lemon zest and sugar alternative. Mix until well combined.

    STEP 3: In a separate bowl, whisk together the almond flour, vanilla whey protein powder, baking powder and salt.

    Wet ingredients combined in a bowl
    Dry ingredient combined in a bowl

    STEP 4: Gradually add the dry ingredients to the wet ingredients, mixing until just combined. Be careful not to overmix to keep the muffins light and airy.

    STEP 5: Divide the batter evenly among the muffin cups, filling each about ¾ full. Bake for 18 to 20 minutes, or until a toothpick inserted into the center of a muffin comes out clean.

    All ingredients folded together
    Muffins baking in oven

    STEP 6: Allow the muffins to cool in the tin for a few minutes before transferring them to a wire rack to cool completely. Once cool, store in an airtight container.

    Finished muffins on a plate, lightly browned.

    Tips for Success

    • Use fresh lemons: Freshly squeezed lemon juice and zest give the best flavor. Avoid bottled lemon juice if possible.
    • Use room-temperature eggs: For best results, use room-temperature eggs. To quickly get eggs to room temperature, run under warm water for a few minutes.
    • Don’t overmix: To keep the muffins light and airy, mix the batter just until the ingredients are combined.
    • Check for doneness at 15 minutes: Since every oven heats differently, we recommend checking for doneness at 15 minutes. Insert a wooden or medal pick into the center and if it comes out clean or with just a few crumbs, it’s done.
    • Cover with tinfoil if needed: If muffin tops are turning overly brown in oven, lightly cover with tinfoil until done baking.
    • Storage: Store muffins in an air-tight container after cooling (as they harden quickly) for up to 3 days. Or refrigerate muffins in covered container for up to a week. They also freeze well.

    How to Store

    Store muffins in an air-tight container after cooling (as they harden quickly) for up to 3 days. Or refrigerate muffins in covered container for up to a week. You may also freeze for up to 3 months.

    Related Recipes

    • Easiest Keto Chocolate Cake Mix Cookies
    • Keto Peanut Butter Zucchini Muffins with Chocolate chips
    • Keto Banana Zucchini Muffins with Almond Flour
    • Low Carb Strawberry Muffins

    If you try this recipe, we would love to hear your feedback! Leave a comment, rate it, and tag @lowcarbsimplified on your photo of this recipe on Instagram or Facebook. We hope you enjoy this recipe as much as we do!

    Recipe

    High Protein Cottage Cheese Lemon Muffins

    Low-Carb Simplified
    These high-protein cottage cheese lemon muffins muffins are so tasty you'll forget they're healthy, low in carbs and high in protein!
    No ratings yet
    Print Recipe Pin Recipe
    Prep Time 15 minutes mins
    Cook Time 18 minutes mins
    Course Breakfast
    Cuisine American
    Servings 14 muffins
    Calories 139.2 kcal

    Ingredients
      

    • ¾ cup low-fat (2% milkfat) cottage cheese
    • ⅔ cup monk fruit with erythritol sweetener (or other sweetener of choice)
    • 3 large eggs
    • 2 tablespoons fresh lemon juice
    • 1 tablespon lemon zest
    • 2 ¼  cups  super-fine blanched almond flour
    • ⅓ cup Quest Vanilla Milkshake Protein Powder (or other low-carb vanilla whey protein powder)
    • 2 teaspoons baking powder
    • ½ teaspoon salt

    Instructions
     

    • Get started: Pre-heat oven to 350 degrees F and line a muffin tin with paper liners or lightly grease it.
    • Combine wet ingredients: In a food processor, pulse cottage cheese until smooth. In a large bowl, combine the cottage cheese, eggs, lemon juice, lemon zest and sugar alternative. Mix until well combined.
    • Combine dry ingredients: In a separate bowl, whisk together the almond flour, vanilla whey protein powder, baking powder and salt. Gradually add the dry ingredients to the wet ingredients, mixing until just combined. Be careful not to overmix to keep the muffins light and airy.
    • Spoon and bake muffins: Divide the batter evenly among the muffin cups, filling each about ¾ full. Bake for 18 to 20 minutes, or until a toothpick inserted into the center of a muffin comes out clean. Allow the muffins to cool in the tin for a few minutes before transferring them to a wire rack to cool completely. Once cool, store in an airtight container.

    Notes

    • Use fresh lemons: Freshly squeezed lemon juice and zest give the best flavor. Avoid bottled lemon juice if possible.
    • Use room-temperature eggs: For best results, use room-temperature eggs. To quickly get eggs to room temperature, run under warm water for a few minutes.
    • Don’t overmix: To keep the muffins light and airy, mix the batter just until the ingredients are combined.
    • Check for doneness at 15 minutes: Since every oven heats differently, we recommend checking for doneness at 15 minutes. Insert a wooden or medal pick into the center and if it comes out clean or with just a few crumbs, it’s done.
    • Cover with tinfoil if needed: If muffin tops are turning overly brown in oven, lightly cover with tinfoil until done baking.
    • Storage: Store muffins in an air-tight container after cooling (as they harden quickly) for up to 3 days. Or refrigerate muffins in covered container for up to a week. They also freeze well.

    Nutrition

    Serving: 1muffinCalories: 139.2kcalCarbohydrates: 14.1gProtein: 8.9gFat: 10.4gSaturated Fat: 0.6gCholesterol: 47.4mgSodium: 199.9mgFiber: 2.7gSugar: 1.8gSugar Alcohols: 9.1gNet Carbs: 2.3gProtein Percentage: 26%
    Tried this recipe?Let us know how it was!

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    Reader Interactions

    Comments

    1. Faye Fern

      May 29, 2025 at 5:59 pm

      Can these be made without using the sugar for a more savory flavor?

      Reply
      • Cathy Chenard

        May 30, 2025 at 5:24 am

        The sweetener does add substance, so it's hard to say if it would work if you remove. If you increase the almond flour, protein goes down. If you do remove the sweetener, I'd suggest using unflavored protein powder (as opposed to vanilla). You could add fresh herbs to pair with lemon like thyme, rosemary or oregano. But, again not sure about the overall impact to texture.

        Reply

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