In order to ensure the Empire's success, the Emperor Dalek determined that there must be one over-arching decision maker and that the time of the Supreme Council was at an end. The surviving members were gathered together and exterminated. The Emperor based itself on the Dalek flagship and was accompanied at all times by a phalanx of Elite Guards. Over the course of the second Empire, improvements were made to Dalek technology and all of these were implemented on the Emperor's casing first, ensuring its place at the top of the Dalek hierarchy.
As the Dalek population was rebuilt, the Dalek Supreme rank became of paramount importance to the Empire. These black Daleks now reported directly to the Emperor. Other than this change, their role remained the same – sector, planetary and regional governors as well as generals for the Dalek military might. Encased within their modified Mark Three Travel machines, it seemed to non-Daleks that Dalek Supreme was the top level of the Dalek command structure. Reference was often made to "the Dalek Supreme", which added to the perception that there was only one such Dalek. This was a deliberate subterfuge instigated by the Emperor to ensure that his existance was never confirmed by the enemies of the Daleks. The mid level Red Dalek rank also remained in operation throughout the course of the Second Dalek Empire. As with the Dalek Supreme rank, their roles and responsibilities were equivalent to their predecessors in the First Empire.
This generation also saw the Daleks beginning to utilise more "individual" Daleks in key positions. Daleks such as the Black and Gold Dalek Inquisitor (also known as "Dalek X") and the Dalek Time Controller in its specially adapted blue casing rose to prominence in the Empire.
