The intensive raising model for meat duck production has widely adopted cascading cages. However, investigations on low-protein diets for Pekin ducks under this model are scarce. Thus, a 3 × 6 factorial experiment was conducted using six dietary crude protein (CP) levels (17.61%, 16.25%, 15.34%, 14.55%, 13.38%, and 12.64%, analyzed) and three cage layers (lower, middle, and upper). The study aimed to examine the effects of dietary CP reduction with crystalline amino acid supplementation on growth performance, carcass traits, and apparent nutrient digestibility in growing Pekin ducks from 21 to 42 days of age housed at different cage layers. A total of 1620 21-day-old Pekin ducks were randomly divided into 18 groups, each with six replicates of 15 ducks per replicate. Ducks were distributed across different cage layers and were fed one of six experimental diets, respectively, each varying in dietary CP levels but maintaining similar dietary energy and amino acid profiles. The results showed that the reduction in dietary CP levels affected growth performance (p < 0.05), while weight gain, feed intake, and feed/gain of Pekin ducks had no difference among 17.61%, 16.25%, and 15.34% CP groups (p > 0.05). As dietary CP decreased, abdominal fat yield increased (p < 0.05), but breast and leg meat yields were unaffected (p > 0.05). CP intake, nitrogen intake, and nitrogen excretion decreased linearly (p < 0.05) with decreasing dietary CP levels, while apparent nutrient digestibility in Pekin ducks increased proportionally (p < 0.05). Additionally, body weight, weight gain, feed intake, CP intake, nitrogen intake, and nitrogen excretion of Pekin ducks decreased (p < 0.05) due to different cage layers, while carcass characteristics remained unaffected by cage layer (p > 0.05). In summary, it is feasible to reduce the dietary CP level with crystalline amino acid supplementation in growing Pekin ducks from 21 to 42 days of age housed in cascading cages, while the cage layers affected growth performance of ducks. Based on broken-line models, it was determined that the optimal dietary CP requirement for achieving maximum weight gain and feed efficiency in growing Pekin ducks is approximately 15%.