I think it's sadly true that the markets still really don't understand anything Apple is doing beyond the iPod... ...I don't think the situation has changed appreciably today.
Yes, take a look at any business magazine or financial site mentioning Apple, and it's always iPod related.
At best, they might mention the "halo-effect" or some rumored new gadget like the iPhone, but it's always half-hearted mentions.
Apple could announce next quarter that their computer hardware sales quadrupled while their iPod sales fell 10% and the stock would plummet.
Hopefully, Apple can outgrow this by contuninung to post solid numbers, but it's going to take a long time for them to get out of the iPods long shadow in the business world.