AirHint found the following cheapest return flights from San Jose (SJC) to San Juan (SJU) in June 2026 (see full year).

Return flights

01 Jun - 04 Jun	Southwest Airlines
04 Jun - 13 Jun	Southwest Airlines
05 Jun - 13 Jun	Southwest Airlines
09 Jun - 16 Jun	Alaska Airlines
18 Jun - 22 Jun	Alaska Airlines
23 Jun - 30 Jun	Alaska Airlines
01 Jun - 10 Jun	Alaska Airlines
20 Jun - 24 Jun	Alaska Airlines
01 Jun - 06 Jun	Alaska Airlines
08 Jun - 12 Jun	Alaska Airlines

Also check the deals for one-way flights from San Jose to San Juan in June.

The deals are updated regularly. The prices may go up as tickets are purchased by other travellers. Only the cheapest flights are offered. Select a price to book and secure these cheap prices.

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Cheapest return flights from San Jose to San Juan in June from $403

Return flights