Although an old topic,

 To follow-up on the suggestion to alter the legend function. 

Type "legend" in R, copy-paste the appearing code into you code-editor and
search for the line 

points2(x1, y1, pch = pch[ok], col = col[ok], cex = pt.cex[ok],

the cex function controls the scaling, so you want the pt.cex become larger,
 
Change this line into, for example 
points2(x1, y1, pch = pch[ok], col = col[ok], cex = pt.cex[ok]+1.5, 

than you run in R
legend_large_box <- function (x, y ....etc.etc. the whole bunch of with the
altered legend code

and call the function legend_large_box within the plotting.

It worked for me.

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