As long as you keep your res temps low, your aeration (and thus dissolved oxygen) high, and the plants seem happy I wouldn't worry about whether or not you've completely eradicated the root rot. I've brought in perfectly good harvests with root systems that still had the remnants of a bout with pythium. It's a battle, and as long as the plants are winning it easily it's not too big a concern.
Just sterilize extra good between grows to make sure it doesn't kill the next crop before it can get strong.
Of course if you've still got the gremlin in your root system you need to keep an extra-close eye on it, and the effort your plants spend fighting it can slightly reduce your yield, but imo it's not worth losing sleep over if things are going well. |