When flying from San Juan to Juneau, the time of day you decide to fly out makes little to no difference towards the overall price you’ll pay on tickets.
Most people fly into Juneau Intl (JNU) if they book a flight to Juneau from San Juan. On average, Juneau Intl has 0 inbound flights from San Juan per day from 0 airlines. Juneau Intl is conveniently located just 6.7 mi from Juneau’s city center.