Best Gluten-Free Baked Goods in San Diego

10 Best Gluten-Free Bakeries In San Diego

Gluten-free is a growing trend in San Diego whether it's a lifestyle preference or necessity. We've done the research and narrowed a list of the 10 best gluten-free bakeries in San Diego for you to choose from. While the baked goods on this list are all gluten-free, not all are from a dedicated gluten-free kitchen (though most are made with dedicated equipment). If you have questions about this, please contact each restaurant or bakery directly.

Award-winning 2Good2B holds our number spot as their entire menu is gluten-free. From pizza to cinnamon rolls, dine-in or take away, this bakery and restaurant is a local favorite of those avoiding gluten. Plus, they ship products, too.

Cupcakes are a huge trend in San Diego and many of these retail shops keep gluten-free guests in mind. Cupcakes Squared makes delicious gluten-free cupcakes... in the shape of a square.

Gone are the days of chewy, flavorless bread and bunless hamburgers. Pick up a loaf of delicious gluten-free bread at Claire's on Cedros or Deanna's Gluten Free Bakery. 

The baked goods on this list are so good that your guests will never know the difference. 


The Cravory is a San Diego-based cookie-only bakery known for unique and delicious flavor creations. Their first flagship cookie shop is open in Point Loma but they also sell cookies at various San Diego Farmers' Markets and via an online retail shop where cookies can be ordered by the dozen or in monthly subscriptions shipped freshly baked directly to your door. The Cravory has 11 signature cookie flavors including Red Velvet and Ultimate Chocolate Chip, as well as six new seasonal cookies created each month. Gluten-free options include chocolate chip and birthday cake. Both certainly taste like the real deal. Note that they are not a dedicated gluten-free facility but they use dedicated equipment.

Recommended for Gluten-Free Baked Goods because: The Cravory is a fantastic option for gluten-free cookie lovers.

Katie's expert tip: The Cravory offers birthday cake and chocolate chip gluten-free cookies and they are outstanding.

Read more about The Cravory →

With lines out the door and new stores popping up all over California, Sprinkles cupcakes are quite the craze. Now, people who eat gluten-free can join in. The Gluten Free Red Velvet cupcake is available daily and marked with a big, red "G" to indicate that it's gluten-free. It's topped with the regular buttercream frosting and fans claim there's very little difference between the gluten-free version and the normal version. Because these cupcakes are made with the freshest ingredients, it's best to indulge on the day otherwise freeze them in an airtight container. Sprinkles can also add custom decorations to any order.

Recommended for Gluten-Free Baked Goods because: They have a gluten-free red velvet cupcake available daily.

Katie's expert tip: You may order a dozen or more cupcakes in advance.

Read more about Sprinkles →

Customers asked for gluten free pastries so they delivered and are working to expand their product line. Currently, Industrial Grind Coffee now makes five flavors of bread, cookies, oat bars, frittatas and other gluten free baked goods that are sold in their multiple locations (the one listed here is among the most popular in Hillcrest). Their products are also sold in local grocery stores like Whole Foods, Keil's, Major Market and Windmill Farms. The oat bars are a customer favorite as are the cookies. Pair with their outstanding coffee. They even give out a few gluten-free recipes on their website.

Recommended for Gluten-Free Baked Goods because: This coffee shop now has several locations in San Diego that carry their line of baked goods.

Katie's expert tip: They bake 5 flavors of bread, cookies, oat bars, frittatas and we hear more are coming.

Read more about Industrial Grind Coffee →


Claire's on Cedros, located in Solana Beach, is an award-winning breakfast and lunch spot. The in-house bakery produces breakfast delights such as scones, cookies, muffins and more. The rest of the breakfast and lunch menu is made up of bistro classics using the finest, locally-sourced ingredients available. The goal of Claire's is to make each diner feel like they're at home. Claire's is the first LEED Platinum certified restaurant in San Diego for use of eco-friendly building materials and continues to implement sustainable practices. Gluten-free baked goods are on offer to-go such as breads, chewy chocolate chip cookies and huge brownies. The gluten-free dine-in menu features plenty of choice for lunch and breakfast (the GF fritattas are popular).

Recommended for Gluten-Free Baked Goods because: Claire's is also famous for homemade bread that doesn't taste gluten-free.

Katie's expert tip: Claire's is awesome for breakfast whether you're gluten-free or not!.

Read more about Claire's on Cedros →

As the name implies, the cupcakes are in a square shape. They take extra care to avoid cross-contamination when baking gluten-free cupcakes, using rice flour. Most flavors can be made gluten-free by request, however, they make sure to have one gluten-free flavor available in the store daily. They can also make really neat cupcake cakes. In addition to cupcakes, these decadent brownie-type creations called "squares" are now also available gluten-free. Choose from chocolate chip, peanut chocolate, cranberry white chocolate and more. Everything is baked daily using the freshest ingredients and without preservatives. The vanilla flavor is popular as is s'mores.

Recommended for Gluten-Free Baked Goods because: The cupcakes are popular for their square shape and awesome taste.

Katie's expert tip: Call in advance as the gluten-free cupcake flavors available in-store can sell out due to popularity.

Read more about Cupcakes Squared →


Sugar and Scribe now has an expanded menu included seated dining in a La Jolla location. Gluten-free options include cakes, cupcakes, pies and cookies that are available in-store, however, they are so popular that you may want to call ahead to check availability. Of course, those that think ahead can order in advance based on the online menu. Gluten-free pies will need 72 hours of notice. Sugar and Scribe also is known for featuring Irish favorites that are the owner's family recipes. They are also a popular choice for catering weddings and parties. Strapped for time? Order a meal from their to-go menu and keep an eye out for their special events.

Recommended for Gluten-Free Baked Goods because: Sugar and Scribe's rise in popularity resulted in a move to a larger La Jolla location and the addition of a breakfast and lunch menu.

Katie's expert tip: Gluten-free fans rave about the peanut butter and caramel flavor cupcakes.

Read more about Sugar and Scribe →

Chef Karen Krasne earned a Certificat de Patisserie from Le Cordon Bleu in Paris, and it has put her in good stead with area gourmets who flock here for a slice of coconut cream torte, a wedge of tangy-sweet tart, a scoop of intensely-flavored ice cream, or a handful of unbelievably awesome chocolate-tea cookies. Offerings vary from day to day, but frequently incorporate fresh fruits and flower garnishes, making them as gorgeous to look at as they are wonderful to eat. Gluten-free menu items include English muffins, baguettes, flourless banana cream cake, creme brulee, dark chocolate cookies and more delights.

Recommended for Gluten-Free Baked Goods because: Sweet or savory, dine in or take out, Extraordinary Desserts has decadent gluten-free options.

Katie's expert tip: Try the gluten-free creme brulee or the yogi chocolate cake that's both vegan and gluten-free.

Read more about Extraordinary Desserts →

Starry Lane Bakery believes that the simple pleasure of a baked cookie should be enjoyed by everyone. And, not only that, it should be a decadent and delicious cookie. The menu is free of animal products or the six most common food allergens (peanuts, tree nuts, dairy, egg, gluten, and soy) which means there's zero risk of cross-contamination. Their mission is to educate the public about food allergens. People rave about the pies, from chocolate silk to apple with a crumb topping. Not to mention that you can enjoy macaroons, cupcakes, pound cakes, specialty cookies and more. This is indeed a gluten-free sweet lover's paradise. All goods are baked in-house.

Recommended for Gluten-Free Baked Goods because: All baked goods lack animal products or the six most common food allergens (peanuts, tree nuts, dairy, egg, gluten, and soy).

Katie's expert tip: Try the lemon shortbread cookies and lemon bars. The entire menu is gluten-free.

Read more about Starry Lane Bakery →

Beach Cities

Though a number of restaurants are dedicated to serving some gluten-free food, 2Good2B is dedicated to serving an entirely gluten, corn and soy-free menu full of comfort food without compromise. Not only can they cater special events like weddings (check out their menu of celebration cakes), fans can stop in for favorite to-go items or all-day dining. Try the cinnamon swirly buns with vanilla frosting, french challah toast, or open-faced turkey sliders. You can even shop online for deliveries shipped straight to their doorstep. This award-winning bakery definitely lives up to its name as patrons believe menu items are so delicious that they're too good to be true, except they are.

Recommended for Gluten-Free Baked Goods because: The entire menu is gluten, corn and soy-free from artisan breads to gourmet sandwiches.

Katie's expert tip: Try the cinnamon bun and strawberry shortcake cupcake.

Read more about 2Good2B →

Healthy Creations Cafe is a 100% gluten-free facility that sources much of their produce locally. All produce is organic with 80% of ingredients organic. In addition to baked goods, they are a full-service cafe with gourmet sandwiches and wraps, paninis, quiche, pizza, quinoa bowls, salads, breakfast tacos, specialty drinks, a fulsome kids' menu, and more. All gluten-free breads (even the sauces, too) are made in-house. While dishes in the cafe are made-to-order they also do have a grab-and-go selection in addition to take-and-make meals to prepare at home. It's also possible to place cafe orders online in advance and have them delivered by DoorDash.

Recommended for Gluten-Free Baked Goods because: It's a 100% gluten-free restaurant also with dairy free, vegan and paleo options.

Katie's expert tip: They serve breakfast all day (try the waffles and cinnamon roll).

Read more about Healthy Creations Cafe →


Meet Katie Dillon

Katie Dillon originally moved to the seaside community of La Jolla to attend UC San Diego. When the opportunity presented itself, she and her husband set off for a 7 year stint overseas as...  More About Katie