Geoscientific evidence shows that various parameters such as compaction, buoyancy effect, hydrocarbon maturation, gas effect and tectonic activities control the pore pressure of sub-surface geology. Spatially controlled geoscientific data in the tectonically active areas is significantly useful for robust estimation of pre-drill pore pressure. The reservoir which is tectonically complex and pore pressure is changing frequently that circumference motivated us to conduct this study. The changes in pore pressure have been captured from the fine-scale to the broad scale in the Jaisalmer sub-basin. Pore pressure variation has been distinctly observed in pre- and post-Jurassic age based on the current study. Post-stack seismic inversion study was conducted to capturing the variation of pore pressure. Analysis of low-frequency spectrum and integrated interval velocity model provided a detailed feature of pore pressure in each compartment of the study area. Pore pressure estimated from well log data was correlated with seismic inversion based result. Based on the current study one well has been proposed where pore pressure was estimated and two distinguished trends are identified in the study zone. The approaches of the current study were analysed thoroughly and it will be highly useful in complex reservoir condition where pore pressure varies frequently.