Hi Rich, I have not had that problem with Lyx, but am at present trying to remove it - or something very similar from Libre Office. OS is Kubuntu 13.04 but it first cropped up in 12.04. If a word, a phrase and sometimes a whole paragraph is copied, or cut during editing it is likely to re-appear almost anywhere in the document.
I had been blaming the clipboard software but now am reasonably sure that it is three button mouse issue with the mouse interpreting a scroll wheel movement as a third button click. Perhaps it's my fault, being too heavy handed with the mouse? Gordon Tauranga N.Z.