Mark,

What are your font settings?  Do you use the standard monowidth font?
Or did you inadvertently set your emacs to a proportional font?
R output is designed for monowidth fonts and looks terrible in proportional
fonts.

When you say ESS-Emacs, are you talking about the *R* buffer, an input
myfile.R buffer,
an output myfile.rt R transcript buffer?
Try starting emacs with
    emacs -q --no-site-files
and bring in lines from your .emacs one at a time, beginning with your
version of (load-library "ess-site")
Rich

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