Top San Diego On the Water

Go whale watching from San Diego aboard a replica of a historic sailing schooner that won the world’s first America’s Cup sailing competition in 1851. Throughout your cruise, your expert guide shares informative commentary about gray whales, dolphins, and other marine animals, along with details about the US Navy sites you pass as you head out on the Pacific Ocean.

Take in the highlights of San Diego Bay during a sightseeing tour by amphibious vehicle. Travel on both land and water, starting on the streets of Seaport Village and rolling down Harbor Drive alongside San Diego Bay. Transition into the water after departing Seaport Village. Cruise past the SeaWorld and Vacation Isle, experiencing the best of maritime San Diego on this fun and informative tour.

Spend a few hours relaxing, sunbathing and sightseeing in the placid waters just off San Diego during this 1 or 2 hour San Diego Harbor cruise. Sit back and relax as you take in a fully-narrated tour, offering top-notch sight lines of the San Diego skyline, a cruise under Coronado Bridge, a look at the bustling US Naval fleet and a chance to spot some of the harbor’s resident sea lions. Choose between 1 and 2 hour cruise options, offering you two trips to fit your schedule and interests.

Explore the San Diego Bay the affordable and eco-friendly way with a pedal boat rental that's great for all ages. Enjoy a gentle ride on the water on this pedal-powered boat equipped with a sun shade. Steer the boat wherever you like during the 1-hour rental time. There's room for up to four on board, and most four-legged friends are welcome, too.

On this experience, relax in style aboard a luxury dinner cruise. Enjoy panoramic views from the boat's deck and take your time over a gourmet, 3-course meal, as you cruise past twinkling city lights that ring San Diego Bay. Listen to an entertaining DJ play music and enjoy an unforgettable evening, or celebrate a birthday, anniversary or another special occasion.

Experience the thrill of driving your own speed boat during this tour of San Diego Harbor. Learn the basics of boating from your expert guide before following your guide's boat around the harbor, cruising past highlights such as the USS Midway, a US Navy submarine, Coronado Bridge, Seaport Village, the cruise ship terminal, the historic ship Star of India and San Diego Maritime Museum. Learn from your guide about these landmarks via the onboard two-way communications system and stop for photo ops on this exciting tour.

See San Diego’s sights by land and water on a 1.5-hour SEAL tour independent shore excursion, and explore this picturesque port of call in an amphibious vehicle. Listen to stories that bring San Diego’s history to life as you travel along the water’s edge, then steer straight into San Diego Bay. Take in sweeping views of SeaWorld, watch for the seals and sea lions that play, eat and bask at Quivira Basin and return to your ship along the scenic Harbor Drive.

Take an evening cruise wining and dining aboard the ‘Spirit of San Diego,’ enjoying top-notch food and drink, plus sparkling skyline views during this San Diego dinner cruise. Dig into your included gourmet meal, accompanied by a complimentary cocktail and live on-board entertainment, as you cruise 25-miles worth of California’s beautiful coastline and gaze at the twinkling stars above. You can also upgrade your cruise to include an unlimited open bar for an additional price.

Set sail at one of the best times of day—sunset—during this San Diego Bay cruise. Board a comfortable sailing yacht and cruise along San Diego's coastline, taking in views of the scenic waterfront, military vessels, and historical landmarks. Catch sight of marine life and enjoy spectacular photo ops. Gorgeous sunset views and Wine makes this tour a great choice for couples or travelers celebrating a special occasion.

Sail into the setting sun aboard a Catalina style sailboat during this intimate cruise with a small group. Feel like you have the ship all to yourself on this trip that’s limited to just 12 total guests, watching as the last rays of the sun drop into the glistening waves. Enjoy the included beer, soft drinks and snacks during the ride, as well as jackets and wind gear in case you get cold. You can even plug in your own music to add to the fun. Departure times vary throughout the year. Guest must contact Sail San Diego after purchase for the exact departure time.

Learn to kayak on the beautiful San Diego Bay with this relaxed experience that's perfect for beginners. Get a lesson in kayak safety and basic skills, and then set off for an hour-long voyage around the bay. Paddle as much or as little as you like, and explore gentle waterways that are only accessible by boat.

Sail along the San Diego Bay on this relaxing 1-hour cruise. While aboard, enjoy views of the city, as well as US naval vessels, the Star of India, and the Coronado Bridge. Catch sight of the Hotel del Coronado, and spot sea lions in their natural habitats. Along the 1-hour route, you can pick up a snack and drink at the snack bar (own expense), and relax as you cruise the water.

Explore San Diego’s vibrant marine life with a full-day snorkeling rental package, and plan a perfect day of fun on the coast with help from an experienced staff. Slip into the water with bright garibaldi fish and the ray-like shovelnose guitar fish, spot harmless leopard sharks then take in views of the city’s sea lion colonies from the ocean. First-time snorkelers can get tips on using the simple equipment, and all will enjoy the flexibility of an independent beach day in San Diego.

See San Diego from a marine vantage point on this 90-minute harbor cruise, including a look at the marina, seabirds and potential sea lion sightings. Listen to live narration from your captain and enjoy for-purchase snacks from the onboard snack bar.

Make the most of your weekend with a 2-hour brunch cruise through San Diego Bay. Capture prime views of the city skyline and harbor from a luxury yacht, and round out your morning bliss with bottomless mimosas and our brunch menu service includes breakfast favorites, vegetarian options, and so much more. Indoor and Outdoor seating available please call Flagship Cruises & Events with seating preference. Listen to our live entertainment as the attentive crew constantly top off your glass. Shouldn’t weekends always be like this?

Enjoy a sailing adventure on a Catalina-style sailboat with just six people for a comfortable, semi-private experience (or, find five friends and fill up the whole boat). Sail in San Diego Harbor during the day. Sit back and relax to enjoy the water views while enjoying complimentary beer, soft drinks and snacks.

Swim with sea lions, sea cucumbers, and more on a 2-hour snorkeling excursion in La Jolla. Perfect for all experience levels, the tour is an ideal option for kids and adults alike. Using complimentary snorkel gear, explore underwater rock formations and caves. A guide is nearby at all times to navigate to the top locations and point out sea life.

Get up close and personal with the highlights of the San Diego Bay—and travel in style—aboard this tiki boat tour. Meet at the marina in the afternoon, hop aboard your one-of-a-kind vessel, and set sail. You’ll see famous boats like the Star of India and the USS Midway Museum, will admire up-close perspectives of Coronado Island and the North Island Naval Air Station, and much more.

We offer the only Paddle Board and Kayak Lessons and Rentals accessing the San Diego Bay National Wildlife Refuge.

A boat ride in San Diego Bay offers the perfect vantage point from which to view the city’s Skyline. This luxury sailing adventure on a 40-foot yacht lets visitors take in the sights in comfort and privacy, the perfect activity for those seeking an extra special addition to their San Diego trip.

Get out into the waters of Mission Bay on a 34 foot sailing boat with a guide. You can be beginners or experienced, and everyone will get a chance to steer and maneuver the vessel. You’ll set the mainsail, and then get into the ocean and feel the cool breeze to power your sail. The boat can take a group of four of you and your family and friends.

Get the best chance of seeing whales and dolphins on a private boat tour. Your party will have the run of the boat, including an enclosed cabin, an observation tower, and a restroom. Your experienced USCG-certified captain knows the best places to spot wildlife and will provide engaging commentary on the local marine ecosystem.

Watch the sun set over San Diego during an all-inclusive small-group cruise aboard a classic sailboat. Pass landmarks such as the Maritime Museum, Coronado Bridge, and USS Midway, and look for sea lions, dolphins, and other wildlife around San Diego Harbor on the 2.5-hour cruise.

Try your hand at catch-and-release fishing on the San Diego pier, with none of the hassle of renting equipment or lugging around poles. An expert fishing instructor brings all the gear, bait, and tackle you need and offers pro tips to get started and increase your chances of catching fish, rays, and even small sharks right from the Pacific Ocean.