To put things into context, the entire sentence from Apple's response reads:
As you might imagine, we are upset at Windows for not being more hardy against such viruses, and even more upset with ourselves for not catching it.
The part that was inadvertently omitted might be the hint of an apology that you were looking for.
Of course, without doubt Apple should have been more sympathetic and helpful to their affected customers as you point out in your article.
The iPod Virus: Apple Arrogance