The separator will only work on a two phase system like water in the fuel. Typically an additive like methanol or ethanol allows the water to go into solution and continue to allow the engine to run. Of course, ethanol itself will cause gasoline to pick up more water from the air (hygroscopic). If the solubility of water in the gasoline/ethanol mix is exceeded then a second phase will form and the separator would help. The best thing is to keep the fuel tank full and or use it all up often and refill with fresh fuel. The ethanol could only be removed by very complicated processes like molecular sieves or distillation and then the octane would be so far off the engine wouldn't run properly anyway. Hope your o-rings, gaskets and other seals are ethanol resistant. Otherwise problems will continue to abound.
Allan