To merge or combine two or more PDF files, presuming that gswin32 (for Windows) or gs (for Linux) is in path,
For Windows
gswin32 -dNOPAUSE -sDEVICE=pdfwrite -sOUTPUTFILE=combine.pdf
-dBATCH file1.pdf file2.pdf file3.pdf
For Linux
gs -dNOPAUSE -sDEVICE=pdfwrite -sOUTPUTFILE=combine.pdf
-dBATCH file1.pdf file2.pdf file3.pdf