I wanted to close out this discussion with an update on what where we ended up. We spent our first day here visiting lots of marinas and trying to compare prices. We found that things were not at all like the east coast. Everyone seems to have a similar price, but then there are the add-ons. Like $15/mo for a dock box, $5/mo to read the electrical meter, WiFi, parking, etc, etc. At one marina this was going to add up to over $100 a month on top of the slip fees! On the east coast all of this typically is just included in your rate, so this was a bit of an eye opener and we quickly learned what to ask about as well as asking "Are there any other fees that you didn't mention?"
Due to traffic hassles, parking hassles and air/noise pollution from the airport, I quickly decided that I didn't want to be on Shelter Island or Harbor Island. There was also the fact that the boat was just going to sit for 4 months while we were gone, so being close to the ocean was a moot point.
We then started looking in the National City/Chula Vista area. Pier 32 was very nice (but they also had lots of additional fees). If we were going to keep a boat down here and live on it, Pier 32 would be our choice. However, there was no need to pay for amenities that we weren't going to use.
We looked at Chula Vista Marina, but we weren't impressed by their security or the condition of a lot of the boats there. We passed on them.
California Yacht Marina had much better security, a friendly staff and reasonable pricing. The only issue that I had was that the 40' slip that was supposed to be 15' wide was only 13'10" and we're 13'6", so I had to move up to a 45' slip. We found a retired mechanic who lives on here who will check in on BlueJacket and we have other neighbors who will also watch over the girl while we're gone.
We also contracted with Blue Moon Yacht Services to wash/detail the boat as we were very impressed with the owner's knowledge of products and his results.
-- Geoff