Sorry, but I found a dialogue within Onyx to control a few hardware features, under:
Configure Printer/Media/Options (highlight the media you want to check)
You can change:
Quality Mode
Speed
Paper Feed
Cutter
etc etc.
I found in the 'Paper Feed' section, changing from the default 'Roll1' to 'Take-Up' got the take up roller working again, spooling the paper as its comes out of the printer.
It appears though you needs to highlight all the media's individually to make this change, I wonder if there is a more 'Global' way to make this change.