This paper presents a research methodology associated with approximately a decade old computa- tional geosciences. To demonstrate how it can be used to investigate the dynamic mechanisms of geological phenomenon, we use as an example the equal-distant distribution of gold deposits in a three-dimensional permeable fault within the Yilgarn Craton, Western Australia. The related numerical results demonstrate that: (1) convective pore-fluid flow in fluid-saturated porous media is the control- ling dynamic mechanism leading to the equal-distant distribution of gold deposits along the fault; (2) the main characteristic of the new methodology is to change the traditionally used empirical, descrip- tive and qualitative methodology into the fundamentally scientific principles based predictive and quantitative methodology. Thus, this new methodology provides a modern scientific research tool for investigating the dynamic mechanisms associated with observed geological phenomena in nature. This paper presents a research methodology associated with approximately a decade old computa- tional geosciences. We use as an example the equal-distant distribution of gold deposits in a three- dimensional permeable fault within the Yilgarn Craton, Western Australia. The related numerical results demonstrate that: (1) convective pore-fluid flow in fluid-saturated porous media is the control-ling dynamic mechanism leading to the equal-distant distribution of gold deposits along the main characteristic of the new methodology is to change the traditionally used empirical, descrip- tive and qualitative methodology into the fundamentally scientific principles based predictive and quantitative methodology. Thus, this new methodology provides a modern scientific research tool for investigating the dynamic mechanisms associated with observed geological phenomena in nature.