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There are two variations to this rumor as well. The first is that the big files required to take full advantage of the retina display could overwhelm 3G application download limits. Oops. And we all know carriers are always <I>so</I> helpful when it comes to being accomodating to app needs (he says ironically).
The second rumor is that scaling current iPad app graphics up to display on the new, much higher resolution retina display could make current apps seem blurry and, well fugly. That depends on the image scaling technology used in the device, but scaling graphics is a pretty old technology and probably won't be too problematic.
The Magic 8 Ball: The Magic 8 Ball reads, "My sources say no." In other words, don't worry about it. Most apps will work, some will break. So it has been with new hardware introductions, so it will always be.