The ionospheric error affects the accuracy of the Global Navigation Satellite Systems observation and precise orbit determination. Usually, only the first order ionospheric error is considered, which can be eliminated by the ionospheric-free linear combination observation. But the remaining higher order ionospheric error will affect the accuracy of observations and their applications. In this paper, the influence of the higher order ionospheric error have been studied by using the International Geomagnetic Reference Field 13 and the Global Ionosphere Maps model produced by the Center for Orbit Determination in Europe. Focus on ionospheric error, the experiment of paper at doy 302 in 2019, which show that the second order ionospheric error impacting BeiDou Navigation Satellite System (BDS) B1I and B3I observation is 6.3569 mm and 11.8484 mm, respectively. Whereas, the third order ionospheric error impacting BDS B1I and B3I observation is 0.1734 mm and 0.3977 mm, respectively. Due to the current measurement accuracy of BDS carrier-phase observation can reach 2 mm, the influence of high order ionospheric error on observation should be considered. For BDS precise orbit determination, the orbit overlapping results are indicated that its orbit accuracy can be improved approximately 5 mm with the higher order ionospheric error correction, which is also in agreement with the results of Satellite Laser Ranging in this work.