GNSS real-time common-view is an improved method of traditional GPS common-view method, which is better suitable for GNSS real-time and remote common-view time transmission. According to the requirements for real-time, high stability and high accuracy of GNSS real-time common-view clock difference data processing and the discontinuous characteristics of some clock difference data observed in practical applications, this paper first studies the relationship between the length of discontinuous data and the evaluation of satellite clock frequency stability. Then, in the process of real-time processing of clock difference data, a data processing method is proposed to obtain a comprehensive clock difference by stability calculation, dynamic weight distribution and weighted summation calculation of multi-satellite clock difference data, so as to improve the stability and reliability of the calculation result. After collecting multiple sets of observed data and conducting experiments, the effectiveness of the real-time clock difference data processing method proposed in this paper is verified. It has practical value in meeting the needs of real-time processing of clock difference data, improving data observation errors, and ensuring good time accuracy and frequency stability of clock difference data.