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The homogeneity of the magnetic field generated by a coil inside a magnetic shield is essential for many applications, such as ultra-low field nuclear magnetic resonance or spin precession experiments. In the course of upgrading the Berlin Magnetically Shielded Room (BMSR-2) with a new inserted Permalloy layer of side length 2.87 m, we designed a built-in coil consisting of four identical square windings attached to its inside walls. The spacings of the four windings were optimized using a recently developed semi-analytic model and finite element analysis. The result reveals a strong dependence of the field homogeneity on the asymmetric placement of the inner two windings and on the chosen material permeability value μs. However, our model calculations also show that these experimental variations can be counterbalanced by an adjustment of the inner winding positions in the millimeter range. Superconducting quantum interference device-based measurements yield for our implementation after fine adjustments of a single winding position a maximum field change of less than 10 pT for a total field of B0 = 2.3 µT within a 10 cm region along the coil axis, which is already better than the residual field of the upgraded BMSR-2.1 after degaussing. Measurements of free spin precession decay signals of polarized Xe129 nuclei show that the transverse relaxation time for the used cell is not limited by the inhomogeneity of the new built-in coil system.