Quantum metrology studies quantum strategies which enable us to outperform their classical counterparts. In this framework, the existence of perfect classical reference frames is usually assumed. However, such ideal reference frames might not always be available. The reference frames required in metrology strategies can either degrade or become misaligned during the estimation process. We investigate how the imperfectness of reference frames leads to noise which in general affects the ultimate precision limits in measurement of physical parameters. Moreover, since quantum parameter estimation can be phrased as a quantum communication protocol between two parties, our results provide deeper insight into quantum communication protocols with misaligned reference frames. Our framework allows for the study of general noise on the efficiency of such schemes.