As the focus of conservation moves from protected areas to include working landscapes, management must accommodate multiple goals. In this context, management focused on individual species must be well justified. Conservation practices that target carefully selected individual species can complement pattern-based criteria needed to maintain species richness and ecosystem function by providing mechanistic rationale and quantifiable targets for conservation actions. However, most treatments of landscape design do not consider the compatibility of management for individual diseasecausing species, invasive species and threatened species simultaneously. We summarize recommendations from landscape epidemiology and invasion management and evaluate whether they are congruent with general principles for vulnerable species' protection. Many, but not all, broad strategies for controlling invasive and disease species appear compatible with strategies for protecting vulnerable species. Local circumstances, scale considerations and the relative importance of landscape and other interventions should guide management of trade-offs among conflicting goals.