When you use JotNot to scan a multipage document, you should consider setting a default paper size for the entire document. This is especially useful when all pages in the document are the same size. Setting a default paper size will ensure that you get the results you expect every time. The video above gives a demonstration on how to do this.
Best,
Alec

, then try turning off Image Stabilization under the Settings. This is due to the fact that image stabilization requires the newest iPhone OS (3.1) so upgrading the OS on your iPhone will also fix the problem.