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The log does not contain the vehicle_global_position topic, and also no vehicle_attitude message. It looks like ekf did not initialize for some reason, and you need to investigate that.
This is not a plotting issue, but a lack of data in the log.
For some reason, log files that have RTK fix in them produce neither a map with GPS track, nor a x / y plot. When there is no RTK fix available, everything works as intended. Example of "non-working" log file: https://review.px4.io/plot_app?log=89fe82b4-4fa5-4b8c-aadb-1d57bc9160e2
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