if you're worried about infection, soak the nibs in some vodka or even everclear (pure grain alcohol) for a day or two - some do weeks. that'll disinfect them, and will even draw out some of the flavors. pitch both the nibs and the alcohol into your fermenter.
Originally Posted by BigB
The other issue there is that after primary the wort has a substantial alcohol content and very little in the way of consumable sugars... not exactly a great breeding ground for bugs.
well, some bugs... others, like brett, can live in there.