USFT set out to improve our understanding and quantifying abilities of flow, transport, and reaction processes in partially saturated heterogeneous media and their consequences on the relevant Darcy-scale for different multiphase conditions and flow dynamics, which is one of the leading open challenges in porous media research. In this project, we developed a novel framework to predict flow & transport processes at the micro and Darcy scales, in partially saturated media, from the basic pore structure parameters and general flow dynamics. First, we developed a new image analysis method and used it to analyze several experimental results of multiphase flow under different flow conditions in a multifluidic device. This study provided new insights into the interplay between stable and unstable processes in multiphase systems on the most basic pore system features (waterfilled pore size distribution, displacement mechanism, and velocity distribution). Furthermore, we used the image analysis method to extract different levels of phase configuration to construct network models of different complexity to evaluate the permeability, velocity distribution, hydraulic tortuosity, and dead-end (stagnant phase) fraction. As discussed in the following, these parameters are the minimal information needed to predict the complex non-Fickian transport in partially saturated media accurately. Second, we developed a Lagrangian CTRW upscaling framework for partially saturated media. This framework uses the velocities distribution, hydraulic tortuosity, and the fraction of stagnant dead-end phase to predict the breakthrough curve of non-reactive solutes. These accomplishments and their integration allow us to characterize diverse flow regimes in heterogeneous media within a unique, entirely predictive template (i.e. not parameterized by the transport parameters or the spatial pore-scale flow field). This interdisciplinary endeavor incorporates particle dynamic models, stochastic methods, CFD models, and analysis of microfluidic device experiments and numerical direct pore simulations