The lithium concentration in the graphite anode of fatigued (cycled 1000 times at 25 °C) Li-ion cell of 18650-type has been probed non-destructively by spatially resolved neutron diffraction. The amount x of Li in LixC6 has been determined in a central plane of a cylinder-type Li-ion cell. A radial mesh with a gauge volume of 2 × 2 × 20 mm3 was used. Besides the evidently lower lithiation grade, caused by a lack of free movable lithium and a loss of electrolyte, a development of fatigue-driven spatial lithium inhomogeneities has been observed in radial direction. Observed changes have been discussed in light of their correlations to an increase of the internal cell resistance and to a change of the electrolyte concentration.