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That is rather unusual - I'm not aware of any specific issues that would have caused GMS to forget updating some of the files, but could try reinstalling.

As other option, if you do not intend to use those functions in "live" code anyway, could open project directory in file explorer (Ctrl+Alt+P), navigate to extensions - GMLive, open GMLAPI.gml with a text/code editor, find (Ctrl+F) and comment out the offending lines in there - that will cause nothing to happen if those functions were then called from "live" code, but you won't have to figure out what's up with your GMS installation.