According to Dan Cohen at Gear Diary this excellent program has been updated:
So what’s new in GoodReader version 3? First and foremost GoodReader now not only lets you read PDFs but it lets you annotate them too. With the new version you can add notes, highlights, markups and drawings. These can then be save for later viewing. You can even come back and edit it further OR edit it on a different iPad or computer. But that’s not all. The new version of GoodReader for iPad makes it possible to select and copy text directly in a PDF document.