In a two-phase operation, E. coli containing $lambda$SNU1 ($Q^{-}S^{-}$) in the chromosome is typically cultured at $33^{circ}C$ and cloned gene expression is induced by elevating the temperature. At least $40^{circ}C$ is necessary for complete induction of cloned gene expression; however, temperatures above $40^{circ}C$ have been shown to inhibit cloned gene expression. This suggests that a three-phase operation, which has an induction phase between the growth and production phases, may result in higher gene expression. In this study, optimal temperature management strategies were investigated for the three-phase operation of cloned gene expression in thermally inducible E. coli/bacteriophage systems. The optimal temperature for the induction phase was determined to be $40^{circ}C$. When the temperature of the production stage was $33^{circ}C$, the optimal time period for the induction phase at $40^{circ}C$ was determined to be 60 min. In contrast, when the temperature of the production phase was $37^{circ}C$, the optimal period for the induction phase at $40^{circ}C$ was $20{sim}30$ min. When the three-phase temperature and temporal profile were set at a growth phase of $33^{circ}C$, an induction phase at $40^{circ}C$ for 30 min, and a production phase at $37^{circ}C$, the highest level of cloned gene expression was achieved.