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How to get from San Diego to San Juan

No nonstop flights. The fastest way is via Austin: about 10h 25m including the connection. Other options: via Miami, Atlanta, Dallas and Denver. Two tickets from $217.

Flights from San Diego to San Juan

Pick a departure date to see flights and seller prices

We search agencies and airlines for your day: nonstop and connecting flights, baggage, departure and arrival times.

Filters

Best fares from San Diego to San Juan

Lowest one-way prices found by recent searches for the next 120 days; press a card to search that date

Cheapest one-way $263 25 November 2026, with a connection Cheapest month November 2026 tickets from $263

Where to connect

Options with one connection, fastest first

fastest, via Austin
10h 25m
two tickets, via Miami
$217
connection options
5
straight-line distance
3,296 mi (5,305 km)
fastest
Via Austin
10h 25m
with the connection
San Diego to Austin flight 2h 55m
Connection of about 3h
Austin to San Juan flight 4h 30m
Via Miami
10h 31m
with the connection
San Diego to Miami flight 4h 55m
Connection of about 3h Arrival: Fort Lauderdale-Hollywood International, Miami International. Departure to San Juan: Fort Lauderdale-Hollywood International, Miami International.
Miami to San Juan flight 2h 36m
two ticketsfrom $217
Via Atlanta
10h 46m
with the connection
San Diego to Atlanta flight 4h 16m
Connection of about 3h
Atlanta to San Juan flight 3h 30m
two ticketsfrom $259
Via Dallas
10h 46m
with the connection
San Diego to Dallas flight 3h 5m
Connection of about 3h Arrival: Dallas Love Field, Dallas/Fort Worth International. Departure to San Juan: Dallas Love Field, Dallas/Fort Worth International.
Dallas to San Juan flight 4h 41m
two ticketsfrom $651
Via Denver
11h 13m
with the connection
San Diego to Denver flight 2h 25m
Connection of about 3h
Denver to San Juan flight 5h 48m
two ticketsfrom $307

One ticket or two

How the options are calculated and what to keep in mind at the connection

Flight times come from the nonstop schedule (estimated from the distance where there is no schedule), with 3h allowed for the connection. The price of an option is the sum of the lowest known fares for each leg; their dates may not match, so treat it as a guide. The search shows tickets for your dates, including connections on a single ticket.

Nearest nonstop flights

The closest you can get without a connection

Frequently asked questions

Is there a nonstop flight from San Diego to San Juan?
There are no nonstop flights in the schedule. You will need a connection, the fastest is via Austin.
What is the fastest way to fly from San Diego to San Juan?
Via Austin: 2h 55m to the connection, 4h 30m after it, about 10h 25m in total with 3h for the connection.
How much does a flight from San Diego to San Juan with a connection cost?
Two nonstop tickets via Miami from $217. This is the sum of the lowest known prices for each leg, and their dates may not match.
Which cities can you connect in between San Diego and San Juan?
Austin (10h 25m total), Miami (10h 31m total), Atlanta (10h 46m total), Dallas (10h 46m total) and Denver (11h 13m total).
How far is San Juan from San Diego?
3,296 mi (5,305 km) in a straight line between the cities.
How much time should I allow for the connection?
The options allow 3h. On a single ticket the carrier is responsible for the connection; on separate tickets you set the margin yourself, allowing time to collect and re-check your bags.