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Featured Mission Bay Independent Hotels

See all 1,595 Hotels in Mission Bay
The Sofia Hotel

The Sofia Hotel

150 W Broadway, San Diego
    3.5 out of 5.0
     
     
    4.3 out of 5 (7,659 reviews)
    Great staff, good location for anyone taking a cruise. Only negative is the sound noise from next d … - 

    The Sofia Hotel$113

    The Sofia Hotel$113
    Town and Country San Diego

    Town and Country San Diego

    500 Hotel Circle North, San Diego
      3.5 out of 5.0
       
       
      3.4 out of 5 (1,927 reviews)
      I'll be back! I enjoyed my time here and look forward to returning again. - 
      The Dana on Mission Bay

      The Dana on Mission Bay

      1710 W Mission Bay Dr, San Diego
        3.5 out of 5.0
         
         
        4.1 out of 5 (7,295 reviews)
        Very nice hotel enjoyed every minute of it - 

        The Dana on Mission Bay$119

        The Dana on Mission Bay$119
        Bahia Resort Hotel

        Bahia Resort Hotel

        998 W Mission Bay Dr, San Diego
          3.5 out of 5.0
           
           
          4.1 out of 5 (4,777 reviews)
          We had a wonderful stay here and will absolutely stay here again. Walking distance to Belmont park, … - 

          Bahia Resort Hotel$122

          Bahia Resort Hotel$122
          California Suites Hotel

          California Suites Hotel

          5415 Clairemont Mesa Blvd, San Diego
             
             
            3.3 out of 5 (1,928 reviews)
            Nice stay Good experience.Permitted an early check-in.Look forward to stay here again. - 

            California Suites Hotel$62

            California Suites Hotel$62
            The Atwood

            The Atwood

            1201 Hotel Circle South, San Diego
              3.0 out of 5.0
               
               
              3.8 out of 5 (1,299 reviews)
              Large room, definitely noisy outside but clean and comfortable. - 

              The Atwood$72

              The Atwood$72
              Catamaran Resort and Spa

              Catamaran Resort and Spa

              3999 Mission Boulevard, San Diego
                 
                 
                4.2 out of 5 (2,484 reviews)
                Such a nice hotel! The location was ideal. The spa was amazing! Kaylyn and Yvonne and Phoung did a … - 

                Catamaran Resort and Spa$149

                Catamaran Resort and Spa$149
                The Horton Grand Hotel

                The Horton Grand Hotel

                311 Island Ave, San Diego
                  3.5 out of 5.0
                   
                   
                  4.3 out of 5 (3,731 reviews)
                  Nice hotel in the Gas Lamp District Very unique hotel, close to many restaurants and bars. Cute little bar and restaurant called Salt a … - 

                  The Horton Grand Hotel$94

                  The Horton Grand Hotel$94
                  Inn By The Sea La Jolla

                  Inn By The Sea La Jolla

                  7830 Fay Ave, La Jolla
                    2.5 out of 5.0
                     
                     
                    4.1 out of 5 (1,554 reviews)
                    Great location and price for the area. Would definitely stay again! - 

                    Inn By The Sea La Jolla$149

                    Inn By The Sea La Jolla$149
                    Lodge of La Mesa (A Quiet Hotel For Adults Only)

                    Lodge of La Mesa (A Quiet Hotel For Adults Only)

                    7911 University Ave, La Mesa
                      2.0 out of 5.0
                       
                       
                      3.7 out of 5 (738 reviews)
                      Nice hotel, very secure. - 

                      Lodge of La Mesa (A Quiet Hotel For Adults Only)$50

                      Lodge of La Mesa (A Quiet Hotel For Adults Only)$50
                      Pleasant Inn

                      Pleasant Inn

                      5550 Clairemont Mesa Blvd, San Diego
                        2.5 out of 5.0
                         
                         
                        4.1 out of 5 (716 reviews)
                        Clean, comfortable, and quiet. Close to everything Clean, comfortable, and quiet. Close to shopping, dining, tourist attractions. - 
                        Gaslamp Plaza Suites

                        Gaslamp Plaza Suites

                        520 E St, San Diego
                          3.5 out of 5.0
                           
                           
                          4.2 out of 5 (1,874 reviews)
                          awesome, but don't get excited about breakfast everything was AWESOME, would stay here again. The view from the rooftop lounge/eating area is spec … - 
                          Kings Inn San Diego - Seaworld - Zoo

                          Kings Inn San Diego - Seaworld - Zoo

                          1333 Hotel Cir S, San Diego
                            2.5 out of 5.0
                             
                             
                            3.9 out of 5 (4,749 reviews)
                            If you are doing a weekend getaway or very small stay in San Diego this hotel is the place for you. … - 
                            E-Z 8 Motel Old Town

                            E-Z 8 Motel Old Town

                            4747 Pacific Highway, San Diego
                              2.5 out of 5.0
                               
                               
                              3.0 out of 5 (630 reviews)
                              Great experience the lady at check in was awesome and super nice - 
                              Urban Boutique Hotel

                              Urban Boutique Hotel

                              1654 Columbia Street, San Diego
                                3.0 out of 5.0
                                 
                                 
                                3.9 out of 5 (2,933 reviews)
                                I made a great choice with this hotel! The staff was above and beyond! Gave great recommendations and directions. The location is in the h … - 

                                Urban Boutique Hotel$75

                                Urban Boutique Hotel$75
                                Bay Club Hotel & Marina

                                Bay Club Hotel & Marina

                                2131 Shelter Island Dr, San Diego
                                  3.5 out of 5.0
                                   
                                   
                                  4.3 out of 5 (2,035 reviews)

                                  Bay Club Hotel & Marina$119

                                  Bay Club Hotel & Marina$119
                                  Heritage Inn San Diego Near SeaWorld

                                  Heritage Inn San Diego Near SeaWorld

                                  3333 Channel Way, San Diego
                                    2.0 out of 5.0
                                     
                                     
                                    2.6 out of 5 (1,729 reviews)

                                    Heritage Inn San Diego Near SeaWorld$54

                                    Heritage Inn San Diego Near SeaWorld$54
                                    Porto Vista Hotel

                                    Porto Vista Hotel

                                    1835 Columbia St, San Diego
                                      3.5 out of 5.0
                                       
                                       
                                      3.4 out of 5 (2,097 reviews)
                                      Good location to visit the Midway and Maritime museum. Quick walk to Little Italy. Reasonable rates … - 

                                      Porto Vista Hotel$99

                                      Porto Vista Hotel$99
                                      Consulate Hotel Airport/Sea World San Diego Area

                                      Consulate Hotel Airport/Sea World San Diego Area

                                      2901 Nimitz Blvd, San Diego
                                        2.0 out of 5.0
                                         
                                         
                                        2.6 out of 5 (1,022 reviews)
                                        I was on a scout mission and this place is a jewel! The location excellent. Go any direction you ca … - 
                                        Westgate Hotel

                                        Westgate Hotel

                                        1055 Second Ave, San Diego
                                          4.0 out of 5.0
                                           
                                           
                                          4.4 out of 5 (1,918 reviews)

                                          Westgate Hotel$139

                                          Westgate Hotel$139
                                          Map

                                          Recently booked Mission Bay hotels

                                          Paradise Point Resort & Spa
                                          4.0 out of 5.0
                                          Last booking: 1 minute ago
                                          Bahia Resort Hotel
                                          3.5 out of 5.0
                                          Last booking: 40 minutes ago
                                          Red Roof Inn San Diego - Pacific Beach/SeaWorld Area
                                          2.0 out of 5.0
                                          Last booking: 1 hour ago
                                          The Dana on Mission Bay
                                          3.5 out of 5.0
                                          Last booking: 1 hour ago
                                          Catamaran Resort and Spa
                                          0.0 out of 5.0
                                          Last booking: 10 hours ago
                                          La Quinta Inn & Suites San Diego Mission Bay
                                          3.0 out of 5.0
                                          Last booking: 13 hours ago
                                          Hyatt Regency Mission Bay Spa and Marina
                                          4.0 out of 5.0
                                          Last booking: 15 hours ago
                                          Rodeway Inn San Diego Beach SeaWorld Area
                                          2.0 out of 5.0
                                          Last booking: 18 hours ago
                                          Motel San Diego
                                          2.0 out of 5.0
                                          Last booking: 22 hours ago

                                          Independent Mission Bay Hotel Guide

                                          Some globe-trotters choose hotels based on location, but others book by name. And thanks to Expedia you don’t have to pick. It is why we offer such an expansive range of Independent hotels in Mission Bay, San Diego. Known for well-appointed rooms and friendly, personalized service, each of the top Independent Mission Bay hotels guarantees an unparalleled level of comfort and quality.

                                          You’ll find best-in-class amenities like clean rooms and quiet atmospheres, and some Mission Bay Independent locations may even offer extra little benefits and discounts for frequent travelers.