An energy analysis, in conventional and organic vineyards, combined with ethanol production and greenhouse gas emissions, is useful in evaluating present situation and deciding best management strategies. The objective of this study was to evaluate the differences in the energy flow between organic and conventional vineyards in three locations, to calculate CO2, CH4 and N2O-emissions based on the used fossil energy and to explore if wine industry wastes can be used to extract bioethanol. The data were collected through personal interviews with farmers during 2004-2005. Eighteen farmers, who owned vineyards about 1 ha each, were randomly selected to participate in this study [(3 conventional and 3 organic) x 3 locations]. The means averaged over all locations for fertilizer application, plant protection products application, transportation, harvesting, labor, machinery, fuels, plant protections products and tools energy inputs, total energy inputs, outputs (grapes), outputs (grapes + shoots), grape yield, man hour, pomace and ethanol from pomace were significantly higher in conventional than in organic vineyards, while the opposite occurred for the pruning. Means averaged over two farming systems for harvesting, tools energy inputs, energy outputs (grapes), grape yield, pomace and ethanol from pomace were significantly higher at location A, followed by location C and location B. Finally, for irrigation, the means averaged over the two farming systems were significantly lower at location C. Greenhouse gas emissions were significant lower in organic than in conventional vineyards. The results show a clear response of energy inputs to energy outputs that resulted from the farming system and location. (C) 2009 Elsevier Ltd. All rights reserved.