Given the wide application of container technology, the accurate prediction of container CPU usage has become a core aspect of optimizing resource allocation and improving system performance. The high volatility of container CPU utilization, especially the uncertainty of extreme values of CPU utilization, is challenging to accurately predict, which affects the accuracy of the overall prediction model. To address this problem, a container CPU utilization prediction model, called ExtremoNet, which integrates the isolated forest algorithm, and classification sub-models are proposed. To ensure that the prediction model adequately takes into account critical information on the CPU utilization’s extreme values, the isolated forest algorithm is introduced to compute these anomalous extreme values and integrate them as features into the training data. In order to improve the recognition accuracy of normal and extreme CPU utilization values, a classification sub-model is used. The experimental results show that, on the AliCloud dataset, the model has an R2 of 96.51% and an MSE of 7.79. Compared with the single prediction models TCN, LSTM, and GRU, as well as the existing combination models CNN-BiGRU-Attention and CNN-LSTM, the model achieves average reductions in the MSE and MAE of about 38.26% and 23.12%, proving the effectiveness of the model at predicting container CPU utilization, and provides a more accurate basis for resource allocation decisions.