Not. I've tried three PDF readers, PDFMate, Stanza and your recommendation Good Reader along with Safari and none render many of the images, maps and graphs in the document, which you can find at:
http://www.wsrphoto.com/web-files/CarbonRiverESA.pdf (warning it's 346 pages)
I've tried other scientific publications and almost all don't render some to many of the graphic formats in the document. And these PDF's were created from a variety of publication and word processing applications (eg. Word, FrameMaker, etc.). I'd like to know if you or anyone can see the images, starting with the one on the cover.
The problem isn't the text in the document, those are fine in these readers, it's the images, maps and graphs that's the problem and it's something with iPad. Right now I'm negotiating with one agency to get a copy of the original to examine the images in the document and look at converting them to iPad compatible ones.