A bootstrap system for dual central processing units includes a south bridge, a first central processing unit, a second central processing unit and a switch control module. The south bridge provides enable signals and reset signals, the first central processing unit provides an identification signal and an operation signal. The second central processing unit receives the enable signals and reset signals. The switch control module receives the identification signal and the operation signal from the first central processing unit to generate a corresponding switch command signal. The south bridge is selectably and electrically connected to the first central processing unit or the second central processing unit under the control of switch command signal.