AirHint found the following cheapest return flights from San Jose (SJO) to San Juan (SJU) in September 2025 (see full year).

Return flights

01 Sep - 12 Sep	Avianca	direct
22 Sep - 27 Sep	Avianca
06 Sep - 15 Sep	Avianca
06 Sep - 14 Sep	Copa
08 Sep - 12 Sep	Copa
13 Sep - 26 Sep	Copa
26 Sep - 03 Oct	Copa
27 Sep - 04 Oct	Copa
06 Sep - 27 Sep	Spirit Airlines
08 Sep - 27 Sep	Spirit Airlines
08 Sep - 15 Sep	Spirit Airlines
13 Sep - 27 Sep	Spirit Airlines
22 Sep - 03 Oct	Spirit Airlines
22 Sep - 04 Oct	Spirit Airlines
27 Sep - 03 Oct	Spirit Airlines
13 Sep - 03 Oct	Spirit Airlines
13 Sep - 04 Oct	Spirit Airlines
26 Sep - 04 Oct	Spirit Airlines
22 Sep - 12 Oct	Spirit Airlines
27 Sep - 12 Oct	Spirit Airlines

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

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 September from $209

Return flights