Here is the website link for information on the upcoming JAL flights from Tokyo-San Diego.
JL66 (codeshare AA5906) NRT-SAN
JL65 (------------ AA5907) SAN-NRT
Flight will operate Monday, Wednesday, Friday, and Sunday. I’ve heard a rumor the flight will become daily somewhere in 2013.
The JAL B788 will be at KSAN from 0945-1130. Website does not say the time zone, but I’m guessing they have the arrival and departure times for KSAN in PDT. Please tell if you have additional info on this flight.