The ecotourism has been given much attention for people in Pearl River Delta, but the status quo of ecotourism has some disadvantages, so it is essential to evaluate the condition of sustainable development of ecotourism in the Pearl River Delta from five aspects. The regional condition, tourist resource market, natural environment, social economy and ecotourism resources are considered. Based on the evaluation results, the regional features and regional differences of ecotourism development from the "Golden Delta" region and the "non-Golden Delta" region are analyzed. It is found that the ecotourism development is extremely imbalanced in Pearl River Delta. The capital used in ecotourism development in the "Golden Delta" region is abundant, but it also has some problems. For example, the distribution of ecotourism resources are so centralized that the market competition is too impetuous. And the developing pattern of ecotourism is unitary. The ecotourism development in the “non-Golden Delta” region is too late, so the basal establishment need perfect. Aiming at achieving the sustainable development of ecotourism, some countermeasures are suggested:developing the natural ecotourism which as a resort; establishing the characteristic cultural ecotourism which can be integrated the Lingnan' culture.