Nee Family Genealogy Forum
According to www.goireland.com genealogy section on names, NEE is a derivative of O' NIADH, which means "decendant of the hero (nia)." In Connemara, it is NEE or KNEE, which is "an approximately correct phonetic rendering of Niadh." Other related names are NEEDHAM, the form NEE takes in Co. Mayo, and NEVILL, NEVILLE, and NEVYLL. There are other names that are loosely related.
It's an interesting site, with information on many names. (I had to look for O'NEE to find this one.)
Cape Cod, MA