Large, strategic "Flagship" missions have unique characteristics that lead to challenging developmental difficulties for the National Aeronautics and Space Administration (NASA). Missions such as the Hubble Space Telescope (HST), James Webb Space Telescope (JWST), and the Mars Science Laboratory (MSL) had technical and programmatic challenges that led to significant schedule delays and subsequent cost growth. Although NASA has instituted policies that have reduced cost growth for more "typical" NASA science missions, NASA Flagship missions remain a distinct challenge due to their requirement to provide unprecedented science or tackle bold exploration goals, typically while concurrently developing new technologies. The unique challenges presented by Flagship missions make it extremely difficult to fully predict cost and schedule given that the technical and programmatic advances needed to meet performance requirements are unprecedented. This paper addresses why Flagship missions are unique and proposes a new programmatic approach to develop and fund Flagship missions.