I just wanted to preface this email by stating that this has not been proven by research but I am fairly confident that I know a primary cause of geographic tongue, or benign migratory glossitis. I first discovered that I had this condition in dental school (I had had it before but didn't notice it). It didn't bother me at all and so I never attempted to treat it. Soon after I was diagnosed with Celiac Disease (an intolerance to wheat) which coincidentally damages the lining of the small interesting resulting in areas which are flat and denuded of villi and micro villi. When you think about it, this is very similar to what happens in geographic tongue...
The "treatment" for celiac is to simply go on a gluten-free diet. This means no products made with wheat rye or barley (e.g. no cookies cake, pasta...). Although the diet seems strict, it is easy to get used to and will greatly improve symptoms and general health. One of the symptoms which disappeared after going on a wheat free diet is my geographic tongue. Although no research has been done I am convinced that celiac is, if not "the" cause, a major contributor to geographic tongue. Many people have an intolerance to wheat but don't know it, I was only diagnosed because my mother and brother were diagnosed (diagnosis is traditionally through an endoscopy but there is now a fairly accurate serum antibody blood test).
This is something you may want to look into, check out some sites on the web and see if you have other symptoms (there are many and different people exhibit different symptoms). I think that if you go on a strict gluten free diet that your geographic tongue will disappear.
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