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High-quality geomagnetic measurements are widely used in both fundamental research of the magnetic field and numerous industrial applications. However, vector data measured by fluxgate sensors show a dependency on temperature due to sensitive coil core material and components of the sensor electronics. Here, we propose a new method for detecting and eliminating temperature dependence in magnetic observatory data. The method is designed to correct temperature drifts in variation vector magnetometer measurements when preparing quasi-definitive data according to an INTERMAGNET standard. A special feature of the method is the semi-automatic adjustment of localization intervals for temperature correction, which prevents boundary jumps and discontinuities in the course of sequential data processing over long intervals. The conservative nature of the approach implies the minimization of the original data amount subjected to correction. The described method is successfully applied in the routine monthly preparation of quasi-definitive data of the Saint Petersburg Observatory (IAGA-code SPG) and can be efficiently introduced at other magnetic observatories worldwide.