What does the damage look like ? When you separated them did you blow off the open brain with a turkey baster to remove any stinging nematocysts? If I was gonna dip it I would try a dip in iodine , it will help to kill off any infection.
Not that it helps you now , but when my open brain was stung badly I was told by an experienced reefer to run the area that was stung under the tap ,and gently brush with a soft toothbrush. I was a little hesitant to do this but it worked great and the brain recovered very quickly. I think the freshwater kills off the nematocysts and stops them from further damaging the stung coral.
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