The invention discloses an ethanol recovery automation controlling system and a method thereof. According to the invention, an outlet of an ethanol waste liquid pretreatment system is connected with an inlet of an ethanol recovery system, a flowmeter is arranged on a connecting pipeline, a pneumatic control valve is arranged on the connecting pipeline of a preheater and a distillation tower, an alcohol discharge port is arranged at the bottom of the ethanol distillation tower, a part of alcohol is introduced into a reboiler and then is back to the ethanol distillation tower, a part of alcohol is introduced into a gas-liquid separator through a pollution-discharge pneumatic valve, through gas-liquid separating, gas is back to the ethanol distillation tower, the liquid is discharged, steam from the ethanol distillation tower is introduced into the preheater for heat exchange, then is introduced into a condensation system for condensation, and the discharged qualified alcohol liquid passes through a finished product cooler for collection. The ethanol recovery automation controlling method is characterized in that waste ethanol crude crystal mother liquor is neutralized, then passes through a filter plate frame for filtering the sediment, and then is introduced into a recovery system for distillation recovery. According to the invention, the ethanol recovery automation controlling system and the method are optimized, energy consumption is saved, sewage discharge is reduced, and distillation yield is increased.