A system and method for controlling boundary layer transition for a high-speed vehicle are disclosed. The method includes determining a location of onset of boundary-layer transition that naturally develops during high-speed flight of the high-speed vehicle, and providing a pair of flow control strips at a surface/wall/skin of the high-speed vehicle such that the boundary-layer transition is delayed or prevented during high-speed flight of the high-speed vehicle. The delayed or prevented locations of the transition result in a change in the high-speed boundary layer during the high-speed flight of the high-speed vehicle. The change in the high-speed boundary layer transition affects skin friction drag, aero-thermodynamic heating, and pressure fluctuations in the boundary layer of the high-speed vehicle.