Externally-bonded FRP laminate is widely used in structural strengthening due to the many advantages of FRP materials. Further enhancement of the strengthening effect can be achieved by inducing prestress into the FRP laminate. However, FRP debonding is still a main issue of this strengthening method, especially the Intermediate Crack-induced debonding (IC debonding). To better understand the impact of FRP debonding on the strengthening effect, a series of parameter analyses were conducted in this study based on the fatigue life prediction model proposed by the authors. The proposed model involves the fatigue damage accumulation of components of the beam, the mutual interaction between each component, and the impact of FRP fatigue debonding. As a result, a stress threshold for preventing FRP fatigue debonding in strengthening the concrete beam was proposed, which aimed to avoid safety hazards caused by IC debonding in practical engineering.