The brain is the most complex tissue in the structure and function of the organism, which contains hundreds of neurons. As a basic unit of the structure of the brain, the structure and function of neurons contain many factors, among which the geometric feature is an important aspect. The morphology of the neurons in brain is so complicated and diversiform that it is a problem to recognize the category of them. Here, we first establish the fuzzy set model based on fuzzy clustering according to the geometry of neurons. We use the optimal classification model of multi-database classification model to improve the fuzzy clustering method and classify the neurons. Then we can obtain the optimal classification result. According to the evaluation method of clustering, we can verify that the improved fuzzy clustering method can get better clustering effect compared with other methods.