A fundamental study of microscopic mechanisms and pore-level phenomena in the Microbial Improved Oil Recovery method has been investigated. Understanding active mechanisms to increase oil recovery is the key to predict and plan MIOR projects successfully. This article presents the results of visualization experiments carried out in a transparent pore network model. In order to study the pore scale behavior of bacteria, dodecane and an alkane oxidizing bacterium, Rhodococcus sp. 094, suspended in brine, are examined for evaluating the performance of bacterial flooding in the glass micromodel. The observations show the effects of bacteria on remaining oil saturation, allowing us to get better insight on the mechanisms. Bacterial mass composed of bacteria and bioproducts growth in the fluid interfaces and pore walls have been recorded and are presented. No gas is observed throughout any of the experiments. The biomass blocks some pores and pore-throats, and thereby changing the flow pattern. As a consequent, the flow pattern change together with the previously proposed mechanisms, including the interfacial tension reduction and wettability changes are recognized as active mechanisms in the MIOR process.