During years of playing vital roles in Shanghai’s science and technology development，Pudong has formed good foundation and experience in implementing scientific innovation activities. But it also faces some obstacles such as the weak capability of resource integration，the stagnate development of innovation service organization，the backward system of selecting and cultivating innovation project. Pudong should further emancipate the mind and unify the understanding of market reform in the future. Pudong can lead the development of Shanghai’s reform and development in the new era through taking steps including supporting the growth of innovational and newly established enterprises，fostering the service and incentive system of talent，pushing innovation cooperating through market，constructing excellent eco-system of finance，changing the government function. Enhancing the power of market is the key to all these steps.