In my humble opinion = IMHO. A good way to say that I am not 100% positive.
I have read several articles about fungus in the ocean. I have found nothing about control of fungus in a reef aquarium, except on fish. I am very familiar with controlling fungus in homes and on plant materials found on land. When one wants to control fungus on land, eliminating the water source is the best way to go, but is not possible in a reef tank.
There are a few fungicides available for application to rid fungus on or in fish. After talking to one of the representatives that sells these products, he told me that they would not be effective in controlling fungus in your situation. Most fungicides control the spore stage anyway.
This leaves AlgaeFix Marine, which is a broad spectrum biocide, which means it will kill a lot of different organisms. At higher levels, the active ingredient in AlgaeFix will kill fungus. I talked to the rep. for AlgaeFix, but he was not very knowledgeable about the product, IMHO. AlgaeFix would be the only product that I am aware of that might work. Personally, I would not be to concerned about your pest unless it starts spreading out of control. Many fungus can be quite harmless and non-invasive.