it does look more like lymphocystis to me, I thought that was a water quality issue myself but I'm sure someone else can clarify. You could do a few waterchanges but personally I wouldn't remove the fish as it looks like it has issues already (mouth issues as you've mentioned) and is probably stressed.
if you do however come to the conclusion that it is flukes, I would use prazipro, you can treat the main tank ( I have used it on my full blown reef several times with no repercussions).
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