Multimodal electrochemical technique incorporating both open circuit potential (OCP) and amperometric techniques have been conceptualized and implemented to improve the detection of specific analyte in systems where more than one analyte is present. This approach has been demonstrated through the detection of ethanol while eliminating the contribution of water in a micro fuel cell sensor system. The sensor was interfaced with LMP91000 potentiostat, controlled through MSP430F5529LP microcontroller to implement an auto-calibration algorithm tailored to improve the detection of alcohol. The sensor was designed and fabricated as a three electrode system with Nafion as a proton exchange membrane (PEM). The electrochemical signal of the interfering phase (water) was eliminated by implementing the multimodal electrochemical detection technique. The results were validated by comparing sensor and potentiostat performances with a commercial sensor and potentiostat respectively. The results suggest that such a sensing system can detect ethanol at concentrations as low as 5 ppm. The structure and properties such as low detection limit, selectivity and miniaturized size enables potential application of this device in wearable transdermal alcohol measurements. (C) 2016 Elsevier B.V. All rights reserved.