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Simple Summary: Although there are several housing systems (e.g., cage and litter) for egg layers, there is still no consensus about housing system effects on egg quality traits. Therefore, the purpose of this study is to determine housing effects on egg quality traits, including free amino acids of albumen and yolk. We observed significant housing effects in body weight gain, eggshell weight, yolk weight, eggshell thickness, eggshell lightness, and several albumen amino acids. Staying 7 weeks in a litter condition seemed to be enough to cause a significantly lighter eggshell color regardless of the egg production stages. These results will be important knowledge in the future layer industry. Many countries have gradually shifted to animal welfare-friendly housing systems for egg layers. However, there is still no consensus among researchers on whether the housing system affects egg quality traits. Therefore, this study aimed to determine the effects of housing systems on egg traits and free amino acid contents of albumen and yolk using two types of housing systems, the conventional cage (cage) system and a floor rearing (litter) system. Tosa-jidori (n = 20) hens were divided into two groups. Experiments during the 7 weeks were performed twice by switching the housing systems (first and second stages). One-way analysis of variance was used to evaluate the effects of housing systems on body weight gain, egg traits, albumen and yolk amino acid contents, and fecal corticosterone. We observed significant housing effects in body weight gain, eggshell weight, yolk weight, eggshell thickness, eggshell lightness, and several albumen amino acids (A_Gln, A_His, A_Met, A_Cys, A_Lys, A_Asp, A_Glu, A_Ser, A_Thr, A_Ala, A_Pro, and A_Phe). Notably, a robust effect was seen in eggshell lightness, even after switching housing systems. These results suggest that eggshell lightness and several egg traits, including albumen amino acid contents, can be changed by using the different housing systems. [ABSTRACT FROM AUTHOR]