I think you will need to ask your son's teacher what it stands for at your school. F.O.T. could stand for anything from 'fear of transition, teacher, or talking' to 'funding of therapy, or technology' to 'focus on toy, or toes' - I have not heard of it, or seen it in the lists of disability and education related acronyms at the Family Village website at www.familyvillage.wisc.edu/general/ref.html
There is a boardmaker discussion group at yahoo groups that might know if it is communication related.
Let us know what you find out!
SE of Seattle
Autism Spectrum Disorders
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