There isn’t a way to directly export a PDF of the Workflow “view” with formatting preserved, although that has been discussed and may be included in a future release. Or if you are interested in helping out, a development PR to add in this functionality would be welcomed. Many views could use this type of output.
The page can be saved in
.htm format (“control+right-click+save-as” on MAC OSX) which will remove a bit of the extra formatting. You’ll end up with just the text, which may be enough.
You could also try importing into MyExperiment and see if their viewing/printing options work for you. How-to: http://wiki.myexperiment.org/index.php/Galaxy_Help#To_access_myExperiment_from_Galaxy_and_enable_the_Galaxy_perspective
.ga file is a complete archive if that is your overall goal. It can be uploaded into any Galaxy server and viewed again, or shared, etc.
Not a very satisfying answer, but hope that helps a bit.
ping @dannon – Is there a better/alternative way to do this I’m missing?