Do you want a free/open source application that can combine, split, rotate, reorder, watermark, encrypt, sign, and otherwise tweak PDF files?
If sure, please have a look jPDF Tweak.
With jPDF Tweak, you can use it to make printable booklets from your PDFs, to add PDF bookmarks, effects (page transitions), to combine multiple PDF files, to watermark them, to rotate pages that do not fit, to attach files to your PDF, to encrypt and sign your PDFs, to change metadata (like author or keywords), and much more.
jPDF Tweak uses the excellent iText library for manipulating PDF files, and JGoodies Forms for the GUI.
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