the resort food courts actually have some good non-burger/non-nuggets/non-pizza meals for counter service credits. Pasta dishes which come with small salad & a bread stick; asian dishes; flat breads, etc. And you usually have several actual bakery dessert choices or ice cream sundaes for your dessert choices (instead of the like many of the park counter service where your dessert choice is two pre-packaged, and not very good, desserts-in-a-cup.)
At Epcot, We do love Sunshine Seasons (asian or grilled pork or grilled salmon...love the bakery dessert choices. DON'T make the mistake of grabbing a pre-packaged yuck dessert here.) Also love the shwarma platter at Tangeriene Cafe (Morocco)
At MK, we love the ribs/chicken combo platter at Cosmic Rays...or the tuna sandwich at Columbia Harbor House.
At Hollywood Studios, we love the gourmet deli sandwhiches at Starring Rolls (and the array of bakery desserts to choose from, including the refrigerated ones like napoleons & tirimisu. Yummo.) But get there early, when the sandwiches are gone, there's no more. And know that there is no special orders here -- the sandwiches are pre-made so it is what it is. Delicious though.
At Animal Kingdom, Flametree BBQ is our choice.
At DTD, Wolfgang Puck (over in Marketplace area) Love the pasta dishes, especially the alfredo. Individually made pizzas are excellent, too. Not impressed with the creme brulee here...but like the frozen yogurt with your choice of topping. It's a counter service - you order at the counter, but then they bring your food & drinks out to you. Nice touch. W Puck is very pricey, you can get your total bill up to over $20 per person...so nice to use a counter service credit on this one!
Earl of Sandwich is also good, but not a particularly good value money-wise...you could easily get the meal & pay cash on this one.