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Two counter-rotating circularly polarized beams are used in a laser-based polarimetry diagnostic providing a phase measurement of the Faraday effect. Collinearity of these beams is a key issue that affects measurement accuracy. Spatial offset from even small misalignment induces systematic error due to density gradient and path length difference. Here, we report an alignment technique using a rotating dielectric wedge, which is capable of reducing spatial offset of two probe beams below 0.1 mm for beams with 40 mm diameter. With optimized alignment, 0.05° Faraday effect fluctuations associated with global tearing modes are resolved with an uncertainty below 0.01°.