The surface fine dead fuel moisture content (FFMC) is an important factor in predicting forest fire risk and is influenced by various meteorological factors. Many prediction methods rely on temperature and humidity as factors, resulting in poor model prediction accuracy under rainfall conditions. At the same time, there is an increasing number of methods based on machine learning, but there is still a lack of comparison with traditional models. Therefore, this paper selected the broad-leaved forest tree species Quercus mongolica and the coniferous forest species Pinus sylvestris var. mongolica in Northeast China. Taking surface dead fine fuel as the research object, we used indoor simulated rainfall experiments to explore the impact of rainfall on the surface dead fuel moisture content. The prediction model for surface dead fuel moisture content was modified by the direct estimation method. Finally, using field data, the direct estimation method and convolution neural network (CNN) model were used in the comparison. The rainfall simulation results showed that the indoor fuel moisture content had a logarithmic increasing trend. Rainfall and previous fuel moisture content had a significant impact on the fuel moisture content prediction model, and both the relational model and nonlinear model performed well in predicting fuel moisture content under indoor rainfall conditions. Under field conditions, humidity, temperature and rainfall played a significant role in fuel moisture content. Compared with the unmodified direct estimation method, the modified direct estimation method significantly improved the prediction accuracy and the goodness of fit (R2) increased from 0.85–0.94 to 0.94–0.96. Mean absolute error (MAE) decreased from 9.18–18.33% to 6.86–10.74%, and mean relative error (MRE) decreased from 3.97–17.18% to 3.53–14.48%. The modified direct estimation method has higher prediction accuracy compared with the convolutional neural network model; the R2 value was above 0.90, MAE was below 8.11%, and MRE was below 8.87%. The modified direct estimation method had the best prediction effect among them. This study has a certain reference value for the prediction model of surface fuel moisture content in post-rainfall fire risk assessment and is also of great significance for forest fire management in Northeast China.