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Looks like they reworded the article to champion the merits of using Ubuntu, whereas before the article was a biased comparison of Ubuntu against Windows. For example, the chart which previously compared Ubuntu applications to their Windows counterparts now only focuses on Ubuntu, and removes the faulty claim that OpenOffice.org is not available for Windows. In fact, the only mention of Windows at all is in the introductory paragraph, which explains what an operating system does.
I don't see this as bullying from Microsoft. If anything, the updated article is more streamlined due to its reduced scope (the merits of Ubuntu as opposed to an unrealistic comparison of Windows to Linux).
Whoever wrote that first version was a doofus. Not only was it inaccurate, what company would post an open letter criticizing 95% of their own product line?
Clearly it was someone who frequently posts on this site. ;-)
Why would they post that Linux is safer than Windows? Because it is. We need to face the truth, and the truth is that Linux is safer than Windows, period.