A valid method to evaluate decisions of a project proposal is the so-called cost-benefit analysis. Criteria are selected and properly weighted to determine if the project is effective and feasible. The present research study is focused on methodical selection of design parameters to install two propeller mixers inside anaerobic digesters of biogas plants. A cylindrical tank of 1400 m3 was considered. For the model-based optimisation, the substrate was considered as a non-Newtonian fluid with a density of 1090 kg/m3. The Oswald-de Waele power-law model was selected to account for the rheological behaviour of the fluid. Installation parameters of the mixers were rotational angles and heights of the shafts of the two propellers. A computational model was developed to simulate the fluid dynamics depending on the mixing process inside the tank. Several configurations were analysed according to evaluating criteria such as the value of the fluid velocity, its distribution along the three spatial dimensions, and the power consumption to rotate the mixers. The maximum fluid velocity and minimum power consumption were observed when the propellers are located at intermediate height inside the tank and with the shafts perpendicular to the tank radius. With this configuration, the fluid reaches a maximum velocity of 0.28 m/s. According to the investigation, it is evident that mixing systems with propeller shafts deep-seated and parallel to the tank radius should be avoided, both in term of efficiency of the fluid mixing distribution and in term of power consumption.