To address the problem of deviation and registration of 3D radar and infrared sensor, this paper presents and improves a method based on the state value and space deviation of federated filtering of unscented Kalman filter and standard Kalman filter, which conduces to real time registering of system deviation of radar and IF sensors. In the method presented here, a covariance matching criteria-based approach was employed for judgment of filtering divergent trend, while self-adaptive attenuation factor was introduced for correction of the predicted error covariance so as to inhibit the divergent phenomenon. The experiment results indicated that the method presented here conduces to improvement of the precision and speed of space registration, showing practical value in deviation registration of 3D radars and infrared sensors.