Hotels in Mission Bay, San Diego

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Best hotels in Mission Bay (San Diego)

Most recommended Mission Bay hotels

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Paradise Point Resort & Spa - San Diego - Bedroom
Paradise Point Resort & Spa
8 Very good
Mission Bay1,347 ﷼+
1,347 ﷼+
Free Wi-Fi
Pool
Pet friendly
Air Conditioning
Catamaran Resort Hotel and Spa - San Diego - Patio
Catamaran Resort Hotel and Spa
7.6 Good
Mission Bay1,150 ﷼+
1,150 ﷼+
Free Wi-Fi
Pool
Pet friendly
Air Conditioning
Bahia Resort Hotel
8.1 Very good
Mission Bay1,028 ﷼+
1,028 ﷼+
Parking
Free Wi-Fi
Pool
Pet friendly
The Dana on Mission Bay
8.1 Very good
Mission Bay931 ﷼+
931 ﷼+
Pool
Pet friendly
Air Conditioning
Hyatt Regency Mission Bay Spa And Marina
7.7 Good
Mission Bay1,229 ﷼+
1,229 ﷼+
Free Wi-Fi
Pool
Pet friendly
Air Conditioning
The Wayfarer San Diego
8.5 Very good
Mission Bay1,273 ﷼+
1,273 ﷼+
Free Wi-Fi
Pool
Air Conditioning
The Boardwalk Hotel
8.5 Very good
Mission Bay1,109 ﷼+
1,109 ﷼+
Free Wi-Fi
Air Conditioning
B5089 Seascape Beach House
9.7 Wonderful
Mission Bay2,597 ﷼+
2,597 ﷼+
Parking
Free Wi-Fi
Modern Beach Studio Condo
Mission Bay1,252 ﷼+
1,252 ﷼+
Free Wi-Fi
Air Conditioning
Manhattan Shores 1C
7.9 Good
Mission Bay1,529 ﷼+
1,529 ﷼+
Free Wi-Fi

How much is a Mission Bay hotel?

Here are our most popular & best value hotels

2 stars and below

3 stars

4 stars and above

Good to know

Low season

January

High season

November

Average price (weeknight)

1,589 ﷼
Cheapest month to stay with an average 51% drop in price.
Most expensive month to stay with an average 25% rise in price.
Average Sun - Thu price over the last 2 weeks.

When to book a hotel in Mission Bay

Price per night / 3-star hotel. Prices are not fixed and may vary with time.
Average nightly price per month
Average nightly price

Top tips for finding a hotel deal in Mission Bay

  • If you’re looking for a cheap hotel in Mission Bay, you should consider going during the low season. You’ll generally find lower-priced hotels in Mission Bay in July and February.
  • For the lowest prices, try to book your Mission Bay hotel more than 90 days before your stay.
  • Not sure just how much there is to see and do in Mission Bay? KAYAK users usually book their hotel here for 4 days.

FAQs when booking a hotel in Mission Bay

  • What are the best hotels in Mission Bay?

    Mission Bay is a great part of San Diego to make your base. If you’re staying in Mission Bay area then Hyatt Regency Mission Bay Spa And Marina, Paradise Point Resort & Spa, and Bahia Resort Hotel are all recommended on KAYAK.

  • How much is a hotel in Mission Bay for tonight?

    If you’re looking for a last minute deal, the best price a KAYAK user has found for a 3-star hotel in Mission Bay in the last 3 hours was 561 ﷼ and the lowest priced 4-star hotel was 609 ﷼. The best price found on KAYAK for a hotel room in Mission Bay for tonight is 561 ﷼.

  • How much is a hotel in Mission Bay for this weekend?

    In the last 72 hours, KAYAK users have found hotel deals in Mission Bay for this weekend for as low as 359 ﷼ per night. Users have also found 3-star hotels from 629 ﷼ and 4-star hotels from 744 ﷼.

  • Which hotels in Mission Bay are romantic?

    If you’re looking for a romantic break with your partner in Mission Bay, then why not stay at The Dana on Mission Bay, Paradise Point Resort & Spa, or Bahia Resort Hotel, which have been recommended by KAYAK users as great for couples.

  • How much does a hotel in Mission Bay (San Diego) cost?

    The average price for a hotel room in Mission Bay is 561 ﷼ but our users have found deals for as low as 359 ﷼. However, hotel prices in Mission Bay vary a lot depending on the type of hotel, the time of year and more factors.

See more FAQs

Where to stay in Mission Bay?

Our map will help you find the perfect hotel in Mission Bay, San Diego by showing you the exact location of each hotel.

What Mission Bay hotel guests are talking about

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Hotels about topic

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Bahia Resort Hotel - San Diego - Restaurant
Bahia Resort Hotel
8.1 Very good
Mission Bay1,028 ﷼+
1,028 ﷼+
Parking
Free Wi-Fi
Pool
Pet friendly
The Dana on Mission Bay - San Diego - Building
The Dana on Mission Bay
8.1 Very good
Mission Bay931 ﷼+
931 ﷼+
Pool
Pet friendly
Air Conditioning
The Wayfarer San Diego
8.5 Very good
Mission Bay1,273 ﷼+
1,273 ﷼+
Free Wi-Fi
Pool
Air Conditioning
Hyatt Regency Mission Bay Spa And Marina
7.7 Good
Mission Bay1,229 ﷼+
1,229 ﷼+
Free Wi-Fi
Pool
Pet friendly
Air Conditioning
Catamaran Resort Hotel and Spa
7.6 Good
Mission Bay1,150 ﷼+
1,150 ﷼+
Free Wi-Fi
Pool
Pet friendly
Air Conditioning

Popular topics

Everything you need to know for your stay in San Diego

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