The detection and quantification of the rolling contact fatigue (RCF) in rail tracks are essential for rail safety and condition-based maintenance. The tomographic reconstruction of the rolling contact fatigue is challenging work. The x-ray is unable to do in-situ inspection effectively. This paper proposes a new approach for RCF construction using 3D eddy current pulsed thermography. A differential time-square-root (sqrt) of temperature drop (DTSTD) is proposed as a mean to construct the sectional images and to reconstruct the thermal tomography image. The proposed method is validated through artificial angular crack slots as well as natural RCF crack. The thermal tomographic reconstruction is compared with the x-ray computed tomography on a rail track head cut-off with RCF cracks.