Polymer composites with one-dimensional (1D) oriented fillers, recognized for their high thermal conductivity (TC), are extensively utilized in cooling electronic components. However, the prediction of the TC of composites with 1D oriented fillers poses a challenge due to the significant impact of filler orientation on composite TC. In this paper, we use a strategy that combines deep learning and ensemble learning to efficiently and quickly predict the TC of composites with 1D oriented fillers. First, as a control, we used convolutional neural network (CNN) model to predict the TC of 1D carbon fiber-epoxy composite, and the R-squared (R2) on the test set reached 0.924. However, for composites consist of different matrices and fillers, the CNN model needs to be retrained, which greatly wastes computing resources. Therefore, we define a descriptor ‘Orientation degree (Od)’ to quantitatively describe the spatial distribution of the 1D fillers. CNN model was used to predict this structural parameter, the accuracy R2 can reach 0.950 on the test set. Using Od as a feature, random forest regression (RFR) was used to predict the TC, and the accuracy R2 reached 0.954 on the test set, which was higher than that of CNN control group. We further successfully extended this strategy to composites consist of different 1D fillers and matrices, and only one CNN model and one RFR model needed to be trained to achieve fast and accurate TC prediction. This strategy provides valuable insights and guidance for machine learning-based material property prediction.