Your plants are getting to much water.They don't need an awful lot of water to thrive.I have 750+ pepper plants this year in my garden, 1500 + last year,(I can a lot of peppers-n-sauce) I honestly ignore them most of the time, water them about every two weeks, depending on where you live.I live in western Pa. And we have been having a lot of rain, my peppers are turning yellow too, but they will be okay,same thing happens every few years.I don't even weed very often if at all. My husband thinks this is wrong, but it works, my peppers are doing good, we have some about 5-6 inches long, Hungarian Hot Wax , 2-3 inch Jalapeno so keep a watch, but I'm sure they will be just fine.