Eigenvalue-based communication technologies using inverse scattering transform (IST) have gained attention as a new transmission strategy in optical fiber communications. In recent years, several studies on artificial neural network (ANN)based equalization and demodulation schemes for eigenvaluemodulated signal have been conducted to enhance the receiver sensitivity. However, in the case of a presence of a carrier frequency offset (CFO) at receiver, the effects of the CFO on ANN receiver of eigenvalue-modulated signal is yet to be reported. In this study, we numerically and experimentally investigated the generalization performances of eigenvalue domain ANN-based demodulator on CFO. Furthermore, we propose to combine an ANN-based demodulator with a CFO compensation method based on IST and a relation between frequency and eigenvalue shifts. The proposed method, based on an appropriate soliton pulse, achieves a high CFO estimation accuracy of submegahertz order even if the CFO reaches ± 2.5 GHz under the noiseless condition. In the presence of noise and a large CFO of 2.5 GHz, the method attains a CFO estimation accuracy below 60 MHz for OSNR=10 dB with a low pilot pulse rate, such as 0.064%. We show the simulation results obtained after applying the proposed CFO compensation to the ANN demodulator, which is valid for 2.5 GHz CFO and long-haul transmission over 5000 km. Experiments performed in this study demonstrate successful demodulation of an eigenvalue-modulated signal with OSNR penalty < 1 dB in the presence of CFO within 1 GHz at 2.5 Gb/s.