When you are here in San Diego, try Rubio's. It is baja-style Mexican food and is made fresh(er) and lighter than typical Mexican-American restaurants. We like the salads, fish tacos, and shrimp burritos.
Chick-Fil-A has a few locations in SoCal. They are closed on Sunday. They have chicken wraps that are fairly healthy (chilled grilled chicken + salad in a tortilla, which is surprisingly tasty). The lemonade is made fresh and the fries are healthier and tastier than most. They offer fresh fruit, too, which is okay. (We love fresh fruit and this is just okay, but WAY better than typical fast food fare.)
La Salsa is another lighter Mexican fast food place. It is a bit healthier than average and fresher made.
Souplantation is not exactly "fast food", but fairly quick and a big hit with many "healthy-minded" folks. Basically a large salad bar filled with fresh veggies that are pretty good for mass-produced food (some is locally grown, too). Then, fresh made soups and pastas and breads. Baked potatoes, fresh fruit and desserts. Plus a frozen yogurt machine and the typical toppings. Typical soda machine, but also some healthier drink options at no extra cost (milk, fresh brewed iced tea, hot tea bags, fresh-squeezed lemonade, sometimes strawberry lemonade - not powdered junk, either). The pasta and bread and potatoes and soups are usually attractive to the not-so-healthy crowd, too. They have a few less-than-healthy salads prepared, too.
In-n-Out Burger is attractive to many healthy-minded folks around here. They don't have microwaves and the food doesn't come from cans and some other such facts. I don't happen to go there anymore, but I have been many times in the past. Pretty fresh tasting for burgers and fries and shakes and such. The lemonade is real and tasty! The shakes are real and tasty, too!
For pizza, most of my healthy friends agree that Round Table Pizza has the freshest and most "real" ingredients. I've been on a tour of our local one with my DD's class and the items really are fresh. We made our own pizzas by hand and they tasted just like when my family and friends go on any other day.
One tip: Avoid the kids meals whenever possible. They have the worst stuff in them, IME. Plus, our DD isn't used to fast food and doesn't like typical kids meal type food. We typically buy two regular adult items and portion it out to cover all three of us. We usually only buy drinks (3) if fresh-squeezed lemonade is available, but will get fresh-brewed iced tea once in awhile or a real ice cream shake once in awhile. We bring water in our stainless steel bottles nearly every time we leave the house, so a drink isn't usually needed. We view them as treats instead. Also, most places don't really mind if you bring your own food if you are dining with a group. Our playgroup does this all the time. Some folks would want X, Y, or Z and most of us would have brought a picnic lunch. We'll all go in and sit down and the people who order will join us. As long as the place isn't packed, no one has said anything to us. When it is crowded and/or with certain age children, it is easier to find outdoor seating and bring whatever you want and share the meal time with family while y'all eat whatever you each want. So, you could pack lunches for your family to eat with your group, then go out for dinner or some other combination of feeding your family some healthy meals while still participating in group eating. We do "two breakfasts" while traveling. We eat something healthy and quick in the hotel and/or host house before meeting everyone for breakfast out. Prevents meltdowns with children and keeps the cost and calories lower overall.
Best wishes! Enjoy your vacation!!!