A flow control system that includes a vacuum device configured to control the level of vacuum applied for urging the flow of aspirated fluid from a surgical site, and a vacuum sensor configured to communicate a signal representative of the sensed vacuum level. A flow sensor control is configured to generate a signal indicative of the rate of aspirated fluid flow. A flow controller monitors the vacuum sensor and the flow measurement device, and communicates a requested vacuum level to the vacuum device for establishing a desired vacuum level. The flow controller employs a first feed back loop that compares the actual sensed vacuum level with the requested vacuum level and adjusts the requested vacuum level as needed. The flow controller implements a second feedback loop that compares the actual flow rate of aspirated fluid with a desired flow rate, and adjusts the requested vacuum level to achieve the desired flow rate.