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I would give it a go with either a dremel or a hobbyists hacksaw, as long as you can get the coral out of the tank easily. Be brave - if the dieback is significant it sounds like you don't have much to lose. Take a small container of tankwater with you to dunk the coral in regularly to stop it drying out, arrange it on a towel, plan your cuts, then cut away. Rinse the frags in the container of tank water then glue them to some small live rock pieces with superglue (let it dry for a full 60 secs) and put them back in the tank at the bottom to re-acclimate before raising them back up to the height they were before. Oh - take pics for us when you do it so we can see!
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Don't Panic!!
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