Can I use my clones?

yes, the issue lies in the old plants roots. cloning would be almost the only wat to save the plant, as long as they are strong enough to root
 
I agree that taking a cutting from a plant that has root rot can be cloned successfully. Keep in mind that the clone will have the same genetics as its mother. So if the mother is genetically susceptible to root rot, so will the clone.
 
well, if you are in soil, try to let the soil dry up a bit more before watering, and if you are in hydro, try to lower your res temps, and or get a little more areation into your water. and you should be fine.
 
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