In nondestructive evaluation (NDE), pulsed phase thermography (PPT) is a commonly used technique which relies on phase contrast to detect defects. This study presents a methodology to investigate how changes in signal processing and geometrical parameters affect phase contrast. Analytically simulated thermal signals are used to evaluate the phase contrast for varying sample thicknesses and defect sizes, relative to a fixed defect depth. To address the issue of spectral leakage, phase contrasts are recorded using both rectangular and Hamming windows before transformation into the frequency domain. A Gaussian process regression (GPR) modelling scheme is used to observe the relationship between phase contrast and geometrical parameters. The results suggest that both the choice of windowing function and geometrical factors can influence defect detection, offering insights to improve the reliability of PPT-based inspections.