 Eisenberger was a founding board member for the provincial transportation agency, the Greater Toronto Transit Authority (GTTA) which later became Metrolinx.He is a leading proponent for a new light rail transit (LRT) system for Hamilton.As part of Metrolinx, Eisenberger helped to initiate service improvements to the city's two rapid transit corridors, the north-south A-Line and the east-west B-Line, and was a key force in the establishment of the West Harbour GO Transit rail station on James Street North that was meant to boost inter-regional connections between Hamilton, the Greater Toronto Area and the Niagara Region

The Province of Ontario established a new Metrolinx Board of Directors in 2009 at which time Eisenberger and all elected representatives, were removed from the board.