Abstract This article proposes a novel kinematic calibration approach to address the ill-conditioned identification matrix problem and enhance the accuracy of parallel manipulators (PMs). The kinematic calibration approach applies the truncated total least-square (T-TLS) regularization method to the inverse kinematic calibration of PMs and does not have the unit inconsistency issue and configuration selection issue. The performance of the T-TLS method in the inverse kinematic calibration of PMs that have the ill-conditioned identification matrix problem is compared to that of classical regularization methods, including the truncated singular value decomposition (TSVD) method and Tikhonov method, in simulations. Then, the kinematic calibration approach is applied to a 3-PSS/S spherical PM prototype in the real world. For the 3-PSS/S spherical PM prototype, the kinematic calibration approach can reduce the absolute angular errors of the end-effector from over 1.0 deg before calibration to less than 0.1 deg after calibration.