The position commands in Section can be used to locate the stamp more precisely (they are calculated relative to the crop box of the stamp). Or, preprocess the stamp with -shift first.
The -scale-stamp-to-fit option can be added to scale the stamp to fit the page before applying it. The use of positioning commands together with -scale-stamp-to-fit is not recommended.
The -combine-pages operation takes two PDF files and stamps each
page of one over each page of the other. The length of the output is the same
as the length of the ``under'' file. For instance:
Page attributes (such as the display rotation) are taken from the ``under'' file. For best results, remove any rotation differences in the two files using -upright first.