So this is what I do for all my garden beds and I have found it particularly useful in the heavy clay soils here in the Piedmont.
After breaking up the soil as much as possible I go in, line-up my beds and dig furrows between them. Personally I like to go with a 2.5ft -3ft wide bed and furrow. I don't dig down much, only 6-8 inches and pile it on top of the adjacent bed. Then I go back and add any amendments directly to the bed and rake everything level. The more organic matter here the better, but sometimes that can take years to achieve and the furrows do a great job of helping the beds drain and keeping the peppers roots dry with minimal compost.
By now, I've got a nice little hill to plant in and can be much less worried about it getting swamped out. After digging out my beds I usually go ahead and add my drip tape for irrigation and when growing peppers my landscape fabric to help control weeds, though those are really optional and dependent on the scale of your operation.
The furrows in clay really act like channels moving the water away from the beds rather quickly. In only the most extreme cases has this not worked for me. Even when water gets piled up at the lowest points, the bed will sit like an island and your plants will have at least some root zone oxygen. If things are constantly getting piled up at your low spots and swamping your beds, you could always dig in a French drain at the low edge of your garden to carry it away. to another spot in the yard.