The best way I've found to crop PDFs is a two stage process. First of all remove all the bits of text (headers, footers, etc) with a cropper (I use Nitro because I have it, but Briss will work fairly well if it can read it). Just get it roughly right, and don't worry about white spaces.
Then run it through soPDF on mode 3. This will remove all the margins, leaving you with each page at its maximum possible size.
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