I was going to recommed the Mission Bay (bay yaking)vs La Jolla (inshore yaking). You need better skills for inshore kayaking.
Things to keep in mind:
1) If you pick the Bay, the place could become a zoo fast (busy with boats, BBQs, joggers, dogs..etc). Not a problem, but be there early to claim your spot.
2) Kayaking the bay is great fun but PAY ATTENTION to big boats (they just don’t see you).
3) There are plenty of fishermen/women in the bay, so think of the Bay etiquette (or avoid becoming the tangle/catch of the day)….stay from casting distance from the shore (at least 30 yards where fishermen are present or PAY close attention)…..if you travel in groups, that will make it easier to spot you.
Don’t forget to have fun…it’s a great way to spend the weekend w/ friends/familiy on the water.