This study presents a novel method for avoiding cell reversal whilst optimising energy harvesting from stacked Microbial Fuel Cells (MFCs) by dynamically reconfiguring the electrical connections between them. The sequential changing of in-parallel and in-series electrical connections in an 8-MFC stack resulted in energy being transferred twice as fast into a super-capacitor avoiding cell reversal in MFCs as opposed to a fixed in-series configuration. This approach, allows for a lower internal resistance state within the stack compared to a fixed electrical configuration. This is critical in the initial stages of energy extraction from MFCs connected electrically in-series where the impedance of the capacitor is drawing high levels of current and cell reversals are likely to occur and hinder performance. Automation of electrical connections doubled the extracted power from the stack whilst halving the charging times without any cell reversal occurrence. The electrical reconfiguring of MFCs was performed by a USB-powered switch-box that modulated the stack's connections. This lead to the development of an energy autonomous switch-box circuitry powered solely by the MFC stack with negligible impact on the overall energy harvesting efficiency (i.e. above 90% Microbial fuel cells (MFCs) are bio-electrochemical systems comprising bacteria in the anode that convert organic matter into electricity. Stacking MFC units can increase the voltage and current output so as to meet the demands of most commercial electronic devices and allow further energising of complex and energy intensive circuitries.1-6 Nevertheless, a MFC responds to sudden chemical and biochemical changes such as substrate diffusion and concentration, pH, temperature, presence of oxygen, biofilm community structure, biofilm thickness and density.7-11 These factors can affect microbial communities and the overall redox potential in the anode which can further result in polarity reversals, a frequently observed phenomenon known to impede stacked MFCs. Reverse of polarity usually happens in an MFC when its internal resistance (R int ) increases rapidly 6,12,13 and many studies have focused on explaining and predicting this phenomenon.6,14-16 As a result, the least performing -reversed-MFC in a stack can cause large variations on the overall performance and efficiency.1 To date, reports suggest that this sudden change in R int is triggered either by a) substrate depletion in the anode, 14,15 b) a "heavy" external load -low R ext -connected to the stack that draws current at levels higher than the anodophillic biofilm can deliver, 1,17,18 or c) it is a case of slow kinetics in the anode or the cathode. 16,19 Research groups have attempted to develop power management systems (PMS) for tackling the issue. [20][21][22] In 2011, Pinto et al. 22 suggested that a maximum power point (MPP) matching algorithm could possibly prevent MFCs operating at values below the R int hence avoiding reversal. It was not until 2014 that Boghani et al. 20 developed a USB powered MPP ...