To control thermal properties in nano- and micro scale is one of the important topics with regards to the phonon engineering. Recently, the mechanical molecular crystals have been developed, which have the potential applications of actuators and soft robots. Most of the crystal motions are induced by photoisomerization or mechanical stress.Thermal phase transition and the photothermal effect are considered as the underlying mechanism for the motions, such as bending, twisting, jumping, and rotating, etc., of the mechanical molecular crystals, called soft crystals. However, due to the lack of the measured data of heat transport properties such as thermal diffusivity or thermal conductivity of single crystals in micro volume size, the quantitative analysis of thermal phenomena in the molecular crystals has not yet been quantitatively analyzed. For example, the photo-thermally induced temperature rise produces the localized temperature distribution near the surface, and thermal diffusivity should be utilized to calculate the temperature distribution in the specimen.To overcome such situation, we propose a micro scale temperature wave analysis (micro-TWA) method to measure the thermal diffusivity of soft crystals in micro scale. (Figure 1) This method enables to measure the axial orientation in single crystals. Furthermore, coupled with the photo-thermal stimulation, the kinetic measurement of thermal diffusivity under the stress induced and photo induced field has been realized. Demonstration of the super elastic phase transition of soft crystal, 3,5- difluorobenzoic acid (3,5−F2bza) and terephthalamide(TPA) will be presented. This is a proposal of the new measurement method, because the experimental determination of the thermal diffusivity in micro scale of organic single crystals, under operating the deformation control, is still a challenge. The experimental validity is discussed with the theoretical analysis using the reference sample. Figure 1