Hybrid electric vehicles (HEVs) and fuel cell electric vehicles (FCEVs) utilize boost converters to gain a higher voltage than the battery. Interleaved boost converters are suitable for low input voltage, large input current, miniaturization, and high-efficiency applications. This paper proposes a novel linear quadratic integral (LQI) control for the interleaved boost converters. First, the small-signal model of the interleaved-boost converter is derived. In the proposed method, an output voltage and a current signal error between two-phase input currents are selected to control not only the output voltage but also a balance between two-phase input currents. Furthermore, steady-state characteristics in terms of the output voltage and the input current are demonstrated by experiments and simulations using an experimental apparatus with a rated power of 700 W. The validity of the proposed method’s tracking performance and load response is demonstrated by comparing it with that of the conventional PI control. The tracking performance of the LQI control for the 40 V step response has a ten times faster response than that of the PI control. Also, the experimental results demonstrate that the proposed method maintains a constant output voltage for a 300 W load step while the PI control varies by 10 V during 70 ms. Additionally, the proposed method has an excellent disturbance rejection.