Despite the widely acknowledged threat posed by invasive species in coastal estuaries, there are substantial gaps at the intersection of science and policy that are impeding invasive species management. In the face of pressing management needs in coastal and estuarine environments, we advocate that introduced species should receive the kind of management effort dedicated, for example, to reducing pollution. We support our argument with some examples of economic costs of estuarine and coastal introduced species and a summary of recent evidence for the ecological costs. We highlight some of the issues that either thwart or facilitate the successful marriage between science and management of introduced species, including the regulatory framework for management. We use the available information on coastal eradication programs, including case histories of the programs for Caulerpa taxifolia and Spartina alterniflora (and hybrids) in the western USA, to indicate the feasibility of managing introduced species and to help point out how management and science can improve the outcome. We close with a research agenda that focuses primarily on science that will really assist with invasive species management and reflects our own experience and the opinions of managers directly involved with this issue.