Enter: Pdftk – The PDF Toolkit
Downloading the Zip file, and in the bin folder was pdftk.exe and libiconv2.dll. Running the pdftk.exe via the command line fired it up into action.
pdftk A=one.pdf B=two.pdf cat A1 B1 output combined.pdf
I done some command line trickery with dir > outputlist to get a single pdftk command with all the documents.
Other Examples of pdftk can be found at: http://www.pdflabs.com/docs/pdftk-cli-examples/