The time accuracy of geomagnetic data is an important specification for one-second data distributions. We tested a procedure to verify the time accuracy of a fluxgate magnetometer by using a GPS pulse generator. The magnetometer was equipped with a high time resolution (100 Hz) output, so the data delay could be checked directly. The delay detected from one-second data by a statistical method was larger than those from 0.1-s- and 0.01-s-resolution data. The test of the time accuracy revealed the larger delay and was useful for verifying the quality of the data.