I took a look on the SEKI permit site, and it looks like the trail head we would want is still quite available for most of the dates we are considering - I don't think Copper Creek heads directly to Rae Lakes, so maybe that is why. After getting a few rejection emails from the JMT already, I have kind of given up on that idea for this year and was looking at this loop hike in SEKI:
https://backpackinglight.com/forums/topic/73686/plus a side trip to Mount Whitney along the way.
Jennifer
Wow, that hike does seem appealing. Not sure why anyone would do the JMT given this option

(joking)
Fresno does have commercial air service, although I'm not sure of the cost vs flying into SFO, OAK, SJC plus car rental. Oakland likely has the cheapest flights, and if you are driving to Fresno the three airports are basically the same driving distance, although San Jose will get you out of town the fastest and easiest way. You will likely need to rent a car at Fresno as well, but conceivably there is an alternative.
Interested to see what you finally decide.
John