Objective: Although it has been recommended that serum free thyroxine (FT 4 ) levels should be targeted to middle-upper normal levels during levothyroxine (L-T 4 ) replacement therapy in patients with central hypothyroidism (CeH), the rationale has not been clarified. Methods: A retrospective single-center study enrolled 116 patients with hypothyroidism (CeH, nZ32; total thyroidectomy (Tx), nZ22; primary hypothyroidism (PH), nZ33; and control benign thyroid nodule (C), nZ29). The patients had received L-T 4 therapy at the Kobe University Hospital between 2003 and 2013. They were stratified according to serum FT 4 level (R1.10 or !1.10 ng/dl), and body temperature (BT), serum free triiodothyronine (FT 3 ) levels, FT 3 /FT 4 ratio, and lipid profiles were compared. The effect of GH replacement therapy on thyroid function was also analyzed. Results: FT 3 levels and FT 3 /FT 4 ratios were significantly lower in patients with CeH than in patients with PH (P!0.05) or C (P!0.05). In patients with FT 4 !1.10 ng/dl, BT was significantly lower in patients with CeH (PZ0.002) and Tx (PZ0.005) than in patients with PH, whereas no differences were found in patients with FT 4 R1.10 ng/dl. In patients with CeH, FT 3 levels were higher in those with GH replacement therapy (PZ0.018). Conclusion: In CeH, patients with median-lower normal levels of serum FT 4 exhibited lower serum FT 3 levels and lower BT. These results support the target levels of serum FT 4 as middle-upper normal levels during L-T 4 replacement therapy in patients with CeH.