“…Several frequency shifts are due to microwave field perturbations either in the free-evolution region or in the Ramsey cavity. These contributions come from spurious spectral lines in the microwave field spectrum [39], microwave leakage [40], the distributed cavity phase shift (DCPS) [41,42], microwave lensing [43,44] and, in the case of the continuous fountain, the end-to-end phase shift [29]. In the following we discuss the microwave spectrum, microwave leakage, the end-to-end phase shift, and the DCPS.…”