We used resting-state functional magnetic resonance imaging (fMRI) to determine whether there are any abnormalities in different frequency bands between amplitude of low-frequency fluctuations (ALFF) and fractional ALFF (fALFF) and between 10 early amnestic mild cognitive impairment (EMCI) patients and eight normal controls participating in the Alzheimer’s Disease Neuroimaging Initiative (ADNI). We showed widespread difference in ALFF/fALFF between two frequency bands (slow-4: 0.027-0.073 Hz, slow-5: 0.01-0.027 Hz) in many brain areas including posterior cingulate cortex (PCC), medial prefrontal cortex (MPFC), suprasellar cistern (SC) and ambient cistern (AC). Compared to the normal controls, the EMCI patients showed increased ALFF values in PCu, cerebellum, occipital lobe and cerebellum posterior lobe in frequency band slow-4. While in frequency band slow-5, the EMCI patients showed decreased ALFF values in temporal lobe, left cerebrum and middle temporal gyrus5. Moreover, the EMCI patients showed increased fALFF values in frontal lobe and inferior frontal gyrus in band slow-5. While in frequency band slow-4, the EMCI patients showed decreased fALFF values in limbic lobe, cingulate gyrus and corpus callosum. These results demonstrated that EMCI patients had widespread abnormalities of amplitude of LFF in different frequency bands.