Good Morning President is an abridged version of the politics and life of three different presidents. The three are: the older President Kim Jung-ho at the end of his term, the young President Cha Ji-wook, a skillful manipulator of foreign policy and with great determination, and a female President Han Kyuong-ja. They are distressed over the choices they have to make between politics and ethics. The affliction of Kim Jung-ho who wins the lottery, the agony of Cha Ji-wook who donates an organ, and the troubles of Han Kyuong-ja who faces the crisis of divorce.
Headmaster Yoon at Neungkol has four sons. The eldest son named Dong-Cheol dies at the war. Yoon adopts Yuriko, a Japanese orphan, as his daughter at 1945 Liberation. The second son named Dong-Min devotes himself to the communist ideology to quarrel with his father with the help of Won-Kyu. One day Yoon is killed with rifles by Won-Kyu, and Yun's wife adopts Keun-Shik, Won-Kyu's son, as her son. At the occurrence of 1950 Korean War, the third son named Dong-Seok becomes a policeman. The youngest son named Dong-Kuk and Keun-Shik escape to Pusan. Dong-Kuk becomes a South Korea Army's soldier, while Keun-Shik becomes a smuggler. Dong-Min is killed on the charge of a communist, while Keun-Shik becomes a millionaire. Dong-Seok kills himself at 1961 students revolution, while Keun-Shik is put in jail in 1962 military revolution.
The chief of Sampo City Police Office, Seung-u, organizes a simulation of a bank robbery, but a by-the-book cop gets too caught up in the role playing in which the simulation doesn't go the way he had anticipated.
A vengeful refugee-turned-pirate steals nuclear materials to attack and obliterate the Koreas in a Nuclear Typhoon. A top South Korean naval officer is assigned the task to stop his plans and execute him.