When you install Luciferin, it asks if it has to split the AmigaOS romupdate.
If you replied with yes, it splits the romupdate, and puts the modules in the Luciferin/modules/romupdate drawer.
You can install these modules just like any other modules.
Use the Luciferin software to install them in the flashrom.
Edit: AFAIK when you install the deneb, the amigaos romupdates are not in the flashrom. Maybe something else is causing troubles?