It depends...
For tomatoes, I prefer the heirlooms and open pollinated tomatoes. (I like the flavor and diversity and I can save seed.) This year I am growing 'Stupice', 'Foxy Lady', 'Purple Haze Homegown', 'San Francisco Fog', 'Clint Eastwood's Rowdy Red', 'Fireworks', a grafted 'Cherokee Purple', and a mystery tomato from seeds that I saved from a mislabeled (hopefully open pollinated) tomato plant that I got a few years ago (this is the first time I will have grown out those few seeds).
For peppers, I like a few open pollinated ones ('Corno di Toro' and 'Lipstick' are two of these), but the hybrid pepper 'Gypsy' is a very good variety for our area and is hands-down our favorite pepper for taste. It can take our cool nights and still produce well, and the peppers are equally good raw in salads, or roasted and served as a side dish.
