Cheesecake Carrot Cupcakes

Featured in Treats That Make Everything Better.

Fluffy cupcakes with pineapple carrot cake, creamy cheesecake filling, and smooth frosting topped with caramel for a winning flavor combo.
Clare Recipes
Updated on Sat, 19 Apr 2025 00:35:26 GMT
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I stumbled upon these carrot cheesecake cupcakes when I needed something fancy for a family get-together last spring. That moist carrot cake with a hidden cheesecake middle makes them way better than regular cupcakes. They've become my go-to treat when I want to wow people without spending forever in the kitchen.

My neighbor came by while these were cooling, and just the smell made her stay for coffee. She took one bite, closed her eyes and went, "I've gotta have this recipe now." It's funny how the basic stuff often gets the biggest reactions.

Premium Components

  • Fresh carrots: Grab a grater and do it yourself instead of buying pre-shredded for better texture and taste
  • Crushed pineapple: My hidden trick that keeps everything super moist with a hint of sweetness
  • Cream cheese: Don't skimp here - full-fat works best in both filling and topping
  • Cozy spices: Cinnamon, allspice, nutmeg and ginger team up for amazing flavor depth
  • Caramel sauce: The finishing touch that looks gorgeous and adds flavor layers
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Baking Steps

Carrot Tips
Use the small holes on your grater for the right texture. Store-bought shredded carrots are usually too chunky and dry for good baking. I learned to pack the carrots down when measuring for the best results. The first batch I made had loose carrots and turned out too dry. Now I really stuff that measuring cup for super juicy cupcakes.
Pineapple Tricks
Make sure to drain your crushed pineapple in a strainer, pushing down to get rid of extra juice. Too much liquid will mess up your batter. But don't go overboard - some moisture is good! I keep the juice for smoothies or sometimes brush it on the finished cupcakes if they need more moisture. You won't taste the pineapple, just enjoy the softness it brings.
Batter Handling
When you mix wet and dry stuff together, go easy and stop once everything's combined. Too much mixing makes tough cupcakes. I switch to a rubber spatula for this part and fold everything with just enough moves to mix in the flour. A few lumps are totally fine! Your batter should be thick but still easy to spoon into the liners.
Cheesecake Middle
Your cream cheese must be really soft or you'll get lumps. When adding the filling, I've found it works great to push the back of a spoon into each cupcake to make a little hole before adding the cheesecake mix. Then swirl it around with a toothpick without mixing it all the way in. This makes pretty swirls and guarantees that creamy center.
Oven Watching
Keep an eye on these cupcakes while they bake - they can go from perfect to overdone really fast. They're ready when a toothpick stuck into the cake part comes out with a few moist crumbs. The centers might look a bit soft because of the cheesecake, and that's exactly right. I start checking at 18 minutes, though 20 usually works best in my oven.
Frosting Secrets
For smooth cream cheese frosting, both butter and cream cheese need to be completely soft. Cold cream cheese always makes lumps you can't fix. I beat these together first until they're totally smooth before adding any sugar. When decorating, I use the 1M tip but leave a bigger dip in the middle than I think I need - the caramel spreads out and this stops overflow. Add the caramel right before serving for the prettiest look.

My husband usually skips cake but ate three of these in one go and now wants them instead of pie for his birthday. There's something about spiced carrot cake with that creamy center and caramel drizzle that just makes people come back for more.

Tasty Combinations

These cupcakes go great with hot tea or coffee to cut the sweetness. For fancy events, try them with sweet wine like Sauternes or Riesling. They're perfect after a big Sunday dinner in fall or winter. My kids love them with cold milk, which works really well with the rich flavors.

Tasty Twists

Try adding some chopped walnuts or pecans to the mix for crunch and flavor. You can use chocolate drizzle instead of caramel if you want something different. For a beach vibe, mix in some shredded coconut with the carrots. Last Easter, I added some orange zest to both the cake and frosting, which made everything taste brighter and more spring-like.

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I've brought these carrot cheesecake cupcakes to baby showers, holiday parties, and everything in between. They always get compliments. There's something special about biting into what looks like a normal cupcake and finding that cheesecake surprise inside. My daughter usually hates carrot cake but asked for these on her birthday last year because "the cheesecake middle changes everything." Sometimes the best treats come from mixing old favorites in new ways.

Frequently Asked Questions

→ Can I prepare these cupcakes early?
Of course! Bake them 1-2 days before, store them chilled in a sealed container, and add caramel topping last minute to keep frosting fresh.
→ Should these cupcakes be kept chilled?
Yes, because the cheesecake and cream cheese frosting need refrigeration. Keep them sealed and they'll last 3-5 days well in the fridge.
→ Can I freeze these cupcakes?
Definitely! Freeze without frosting for up to two months. Thaw in the fridge overnight, then frost for freshness. Frosted ones can be frozen too, though texture might vary.
→ What's an alternative to crushed pineapple?
You can swap in applesauce or grated apple instead of pineapple. While it tweaks the flavor slightly, it'll still give moisture to the cakes.
→ Why use room temperature ingredients?
When ingredients are room temperature, they mix better, giving a smoother batter. Cold butter or cream cheese can create lumps and change baking results.

Cheesecake Carrot Cupcakes

Fluffy carrot cakes with a creamy cheesecake middle, covered in cream cheese frosting and caramel sauce, perfect for sweet cravings.

Prep Time
20 Minutes
Cook Time
22 Minutes
Total Time
42 Minutes

Category: Sweet Stuff

Difficulty: Intermediate

Cuisine: American

Yield: 12 Servings (12 cupcakes)

Dietary: Vegetarian

Ingredients

→ Carrot Cupcakes

01 ¾ cup packed grated carrots
02 1 teaspoon baking soda
03 ½ cup sugar (granulated)
04 ½ cup vegetable oil
05 2 teaspoons vanilla extract
06 2 large room-temperature eggs
07 ¼ teaspoon each of ground nutmeg and ginger
08 ¼ cup well-drained crushed pineapple
09 ½ cup packed brown sugar (light)
10 1½ teaspoons cinnamon powder
11 ¼ teaspoon salt
12 1 teaspoon allspice
13 1 cup + 3 tablespoons all-purpose flour (spooned and leveled)

→ Cheesecake Filling

14 ½ teaspoon vanilla extract
15 6 ounces softened cream cheese
16 3 tablespoons sugar (granulated)

→ Cream Cheese Frosting

17 ½ cup room-temperature butter (unsalted)
18 1½ cups powdered sugar
19 6 ounces room-temperature cream cheese
20 ½ teaspoon vanilla extract

→ Topping

21 Caramel sauce (a brand like Smuckers works great)

Instructions

Step 01

Set your oven to 350°F (175°C) and line a cupcake pan with liners.

Step 02

Using a big bowl, stir the oil, white sugar, brown sugar, carrots, pineapple, eggs, and vanilla until they’re all blended nicely.

Step 03

In another bowl, sift the flour, spices (cinnamon, allspice, nutmeg, ginger), baking soda, and salt. Gently fold this mixture into the wet ingredients. Stop mixing as soon as it’s combined to keep the texture right.

Step 04

Blend cream cheese, sugar, and vanilla in a medium bowl until the mixture is satiny smooth.

Step 05

Fill liners about two-thirds of the way with the carrot batter. Then, plop a spoonful of cheesecake filling in the center and lightly stir it into the batter using a knife or toothpick.

Step 06

Bake cupcakes for 18-22 minutes until a toothpick checked in the cake comes out without batter chunks. Cool them in the pan for 5 minutes before placing them on a rack to finish cooling.

Step 07

With a mixer, whip the butter and cream cheese on medium speed till creamy, around 2-3 minutes. Slowly add powdered sugar and vanilla. Once mixed, crank up the speed to get it fluffy in 2-3 minutes.

Step 08

Pipe your frosting in a swirl with a 1M star tip on the cooled cupcakes. Leave a tiny center hole and drizzle in caramel sauce.

Step 09

Chill or enjoy right away. If refrigerated, let the cupcakes sit out for 15-20 minutes before eating for the best texture and taste.

Notes

  1. To get a silky batter and frosting, let all chilled ingredients come to room temperature first.
  2. Want some crunch? Toss in some pecans or walnuts into the batter before baking.
  3. Press the juice out of your pineapple well to avoid soggy cupcakes.
  4. This combo gives you all the carrot cake goodness with a cheesecake surprise!

Tools You'll Need

  • Cupcake or muffin tin
  • Paper liners for cupcakes
  • Electric mixer or hand mixer
  • Bowls for mixing
  • Spoon and cup measurements
  • Strainer or sifter for dry stuff
  • 1M piping tip with piping bag
  • Knife or toothpick for swirling

Allergy Information

Please check ingredients for potential allergens and consult a health professional if in doubt.
  • Has gluten (wheat)
  • Includes dairy (butter, cream cheese)
  • Eggs are used

Nutrition Facts (Per Serving)

It is important to consider this information as approximate and not to use it as definitive health advice.
  • Calories: 380
  • Total Fat: 23 g
  • Total Carbohydrate: 42 g
  • Protein: 4 g