Panera Bread Apple Cinnamon Raisin Muffins

One of my favorite pastries at Panera is the apple cinnamon raisin muffin. Enormous, fluffy sweet muffins loaded with spiced apples, cinnamon, and raisins, topped with streusel and icing. What is not to love?

cinnamon apple raisin muffins with streusel topping and vanilla icing

Cinnamon Apple Muffins with Raisins

When I really love something from a restaurant, especially a chain restaurant that lists its menu ingredients online, I go over and try to figure out how to replicate my favorite as closely as possible. I am very pleased to say that I think I have done it with these muffins.

About This Apple Cinnamon Raisin Muffins Recipe

I will freely admit that this is not a beginner’s recipe. Although, if you have experience with making bread, you will definitely have a head start. There are a lot of components to this recipe: the bread base, cinnamon-raisin filling, spiced apple filling, streusel, and icing.

If you’re up for a day spent in the kitchen, enjoy it. You’ll be rewarded with the closest you can get to Panera without having to get in the car.

If you would rather not work quite so hard for your sweet Cobblestone reward, there are a few ways you can go about simplifying this recipe. I will make note of them at the end of the recipe.

Recipe Ingredients

I love Panera Bread, they have made a good effort in making sure their food has ingredients we can all spell and say simply. They are all about everyday food. It makes it easy for you to modify a recipe by changing out ingredients that work best for you.

Here’s a list of what you need for this recipe:

  • Butter
  • Sugar
  • Eggs
  • Kosher and table salt
  • All-purpose flour
  • Active dry yeast
  • Dark brown sugar
  • Honey
  • Ground cinnamon
  • Raisins
  • Apple pie filling
  • Cinnamon baking chips, optional
  • Powdered sugar
  • Vanilla extract
  • Lemon extract
  • Milk
  • Water

How to Make Panera Apple Cinnamon Raisin Muffins

  1. Make a simple bread dough for the muffin base.
  2. Make a cinnamon mixture.
  3. Make a cinnamon apple filling.
  4. Roll out the dough into a rectangle.
  5. Sprinkle cinnamon mixture and raisins on the dough.
  6. Roll up the dough and cut it into slices.
  7. Cut the slices into pieces.
  8. Place a third of pieces into a jumbo muffin pan.
  9. Put apple filling on the pieces.
  10. Repeat with remaining dough pieces and apple filling so you have 3 layers of dough pieces and 2 layers of apple filling.
  11. Make the streusel topping and sprinkle it on top.
  12. Let rise then bake the muffins.
  13. Make the vanilla icing and drizzle it on the muffins.
cinnamon apple raisin muffins with crumb topping

Love Panera Bread? Look at these copycat recipes!

Favorite Sweet Breakfast and Bread Recipes

Check out more of my easy bread recipes and the best Panera recipes here on CopyKat!

This recipe is from Jenni Field from the Online Pastry Chef, be sure to check out more of her recipes on her blog.

Cobblestone Muffins

Panera Apple Cinnamon Raisin Muffins

Do you enjoy the Panera Bread Apple Cinnamon Raisin Muffins? Make them at home with this copycat recipe.
4.8 from 5 votes
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Course: Breakfast
Cuisine: American
Keyword: Apple Cinnamon Raisin Muffins, Panera Bread Cobblestone Muffins, Panera Bread Recipes
Prep Time: 30 minutes
Cook Time: 30 minutes
Total Time: 1 hour
Servings: 12
Calories: 651kcal


For the Dough

  • 1 cup water plus 2 tablespoons
  • 1/4 cup butter melte
  • 4 tablespoons sugar
  • 1 large egg
  • 1 teaspoon kosher salt
  • 4 cups all purpose flour
  • 2 teaspoons active dry yeast

Cinnamon Raisin Filling

  • 1⁄4 cup butter softened, not melted
  • 1⁄4 cup dark brown sugar packed
  • 1⁄2 large egg (beat 1 large egg and then measure out half. Use the rest in your scrambled eggs)
  • 2 teaspoons honey
  • 1 tablespoon all-purpose flour
  • 1 1/2 teaspoons ground cinnamon
  • 1/4 teaspoon salt
  • 1/4 cup raisins if you like more add an addition 1/4 cup

Spiced Apple Filling

  • 1 cup apple pie filling Lucky Leaf brand recommended
  • 1/4 cup cinnamon baking chips OR 1⁄2 teaspoon ground cinnamon
  • 1/4 teaspoon salt

For the Streusel

  • 1/2 cup all-purpose flour
  • 1/2 cup granulated sugar
  • 1/2 cup butter cool, should be softened
  • 2 teaspoons honey
  • 1/4 teaspoon ground cinnamon
  • 1/4 teaspoon salt

For the Icing

  • 1/2 cup powdered sugar
  • 1/8 teaspoon salt
  • 1/4 teaspoon vanilla extract
  • 1/8 teaspoon lemon extract
  • 2 teaspoons milk


For the Dough

  • Put the water, butter, sugar, egg, and salt in the bowl of your stand mixer. Stir briefly with a whisk. Add the flour, and then add the yeast on top. Mix on low speed with the dough hook until a shaggy dough forms, about 1 minute. Increase speed to medium and knead for 10 minutes. The dough will be soft, very shiny, and supple. It will also be very soft. Don’t worry about that–we want a soft dough. Leave the dough in the mixer bowl, and scrape it into a ball, spray with pan spray, and cover with plastic wrap. Let rise in a warm spot until doubled in size, about 1 1⁄2 hours. 

For the Cinnamon Raisin Filling

  • Using a whisk or a hand mixer, mix all the ingredients except the raisins together until smooth. Reserve the raisins for assembly.

For the Spiced Apple Filling

  • Using a chef knife, or a mini-prep, chop or pulse the apples until the pieces are about the size of small peas. You don’t want it completely smooth like applesauce. Think more like salsa. Stir in the salt and cinnamon chips, if using. If not using cinnamon chips, stir in the ground cinnamon and set aside. 

For the Streusel

  • Using 2 forks, a pastry blender, or your fingers, mix all the streusel ingredients together until sandy with little clumps of butter. Set aside. 

To Assemble and Bake

  • Sprinkle a bit of flour on top of the dough and then punch it down to press out the gases. Turn the dough out onto a lightly floured surface, and flour the top of the dough lightly as well. Roll dough into a rough rectangle about 18” x 10”. Spread the Cinnamon mixture evenly over the surface of the dough. Sprinkle on the raisins, if using. Starting from a long end, roll up the dough into a cylinder as if you were making cinnamon rolls. Pinch the seam to seal. Cut the dough into 9 equal pieces. Cut each of these pieces into 3 pieces for a total of 18 “cinnamon rolls.” 
  • Line 2 jumbo muffin tins with jumbo muffin liners (you will only need to line 3 cavities in the second pan since this recipe makes 9 muffins). For each muffin, you’ll be using 3 of the “cinnamon rolls.” Cut the first in 4-5 pieces and put them in a lined muffin cavity. Top with a spoonful of apple filling. Repeat twice more with the second and third “cinnamon rolls.” When finished, you’ll have a muffin with 3 layers of cinnamon roll and 2 of spiced apple. You will be filling the muffin cups almost to the tops. 
  • Continue making muffins with the rest of your dough and apple filling. Evenly sprinkle on the streusel, dividing it evenly among the 9 muffins. Cover muffins and let rise in a warm place until puffy, about 45 minutes. While muffins are rising, place a rack in the center of your oven, and preheat to 350 F. Bake until golden brown and well risen. The internal temperature of the muffins should be about 195F, give or take 5 degrees. This will take about 30 minutes. If the muffins seem to be browning too quickly, loosely tent with foil. Let the muffins cool for 10 minutes and then remove muffins to a rack to cool completely. Once cool, use a fork to drizzle each muffin lightly with the glaze.

For the Glaze

  • Whisk the ingredients together until smooth. You can wait until the muffins are cooling after baking to do this part.


Ways To Simplify the Cobblestone Recipe
Start with store-bought sweet dough, such as the type made by Rhodes Bake-N-Serv. Instead of rolling out the dough and making “cinnamon rolls,” you can also roll the dough into ping pong ball-sized balls, dip them into the cinnamon mixture, and roll them in raisins. Use an equal number of balls for each muffin, making sure to add in the apple mixture. Leave out the apple mixture entirely. You can also leave off the streusel or the glaze if you prefer. Make a Cobblestone coffee cake by making the whole thing in a well-greased tube pan or springform pan.


Mixing bowls
Muffin liners
Muffin tins


Calories: 651kcal | Carbohydrates: 92g | Protein: 7g | Fat: 29g | Saturated Fat: 17g | Cholesterol: 102mg | Sodium: 647mg | Potassium: 156mg | Fiber: 2g | Sugar: 46g | Vitamin A: 895IU | Vitamin C: 1mg | Calcium: 45mg | Iron: 2.8mg

About Stephanie Manley

I recreate your favorite restaurant recipes, so you can prepare these dishes at home. I help you cook dinner, and serve up dishes you know your family will love. You can find most of the ingredients for all of the recipes in your local grocery store.

Stephanie is the author of's Dining Out in the Home, and's Dining Out in the Home 2.

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Reader Interactions


  1. Cupshe Coupon code

    I here informing you that i always like to come here and read your perfect kind of information which you always share in your post. I never miss your blog layout and your post. Please keep sharing latest and wonderful information with us.

    • Claudia Hamilton

      I’ve been going to Denny’s and they came out with a pancake cinnamon hole, they are to die for. Can you see if you can copy the recipe?

  2. Anker Coupons

    Wow, I really impressed. I love to have it once. ill try to make it at home.Hope it be nice. Thanks for shearing that instructions with us.


    I have loved this muffin for such a long time. I asked for recipe when in Panera once and was told “Nope”. I WAS told it had apple pie spice in it ?? Matters not to me, I am using your recipe !!
    This will be on my to-do list tomorrow. Think a few special folks will receive for Christmas Eve so they can warm and enjoy with coffee, Tea, or a Mimosa Christmas morning.
    With apples so plentiful right now, I may ‘push the envelope’ and make my own apple filling. I will let you know how my culinary adventure turns out .
    Many Thanks.

  4. roll the ball

    wow what a great post is this… thanks for sharing boss, keep share these valuable content.
    I’m really impressed with your article, such great & usefull knowledge you mentioned here

  5. Nark R

    Thanks for all the grrrreat recipes.
    Really?? a whole egg divided into 9 large muffins will taste “eggy” …well, it is for breakfast, but how about a small egg?

    • Jenni

      You are welcome to use the whole egg. Go for it! if I’m going for a copycat recipe, I try to make it as similar as I humanly can to the original, and I’m generally pretty exacting in my work. But again, if you find it fussy to use half an egg, nothing terrible will happen if you add the whole thing. It just won’t be quite as an exact a copycat.

  6. Claudia Hamilton

    Thanks for all the good recipes, your amazing. You must have great taste buds to figure what’s in a recipe. That’s a real talent.

  7. html color

    A great and new dish from the familiar ingredients. Most importantly, you teach very detailed and easy to understand. Thanks a lot. I will cook for my family.

    • Jenni

      Good question. Just crack it into a little bowl, beat it with a fork, and measure out half, which will be about 1 1/2 tablespoons or so. Put the rest in your scrambled eggs or an omelette. I know it’s a bit fussy to call for half an egg, but the egg is there for a binder to keep the muffin together rather than to break apart like monkey bread when you take it out of the wrapper. Too much egg could make it taste eggy, which is not what we want. If you’d rather, you can use the white by itself.

  8. Clarice

    sounds good to me. You hit the nail on the head with their chicken and rice soup,and i make it a lot. so I will definitely try this one

    • Jenni

      They are a bit of work, but man are they fantastic. 9 huge muffins seems like a lot, but you will want more than that, I guarantee! 🙂

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