Strained SiGe and SiC sources and drains are planned to be used in sub-28nm FDSOI devices in order to improve the carriers mobility. Consequently, silicide-induced relaxation of strained epitaxial layers is a key issue to address in order to fully benefit from the desired effects of strain engineering techniques. This paper deal with the impact of the silicidation process conditions on the strain of Si 1-x Ge x :B layers (x=0.3 and 0.45) and SiC:P with [C]≤1,5%. We show that the strain of epitaxial layers is not affected by the silicidation in the case of Si 0.7 Ge 0.3 and SiC, while a strong degradation of strain occurs with Si 0.55 Ge 0.45 . The strain evolution in the channel of a device at various stages of the silicidation process has been followed using dark field electron holography. We show that process parameters can be tuned in order to minimize the reduction of strain induced by the silicidation.