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...nder startup options, not things to do with history. However, Duncan's reply did hint at an inconsistency, in that savehistory() defaults to using a file called .Rhistory in getwd(), rather than using R_HISTFILE. I've modified my savehistory to default to R_HISTFILE if it exists, like so: savehistory_ function( file) { if( missing( file) && is.null( file <- Sys.getenv( 'R_HISTFILE'))) file <- '.Rhistory' get( 'savehistory', pos='package:base')( file) } #This is not a bug. If you override a system function, you #can't expect it #to be us...