Slvtmong00se,
Have you tried some of the tools offered in the PDF forum for cropping? There is BRISS, which makes it easy to crop an entire PDF.
You might also take a look at PDFReflow, if you are willing to convert your PDFs, and they are somewhat simple novels rather than technical documents.
As for converting zip file of jpegs, I have had good luck with Jomic to convert zip and rar archives into PDF documents.
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