I believe to have read, that the batches for the same proteins are differently prepared v.v. UD and BOINC, but FAAH = FAAH and Rosetta=Rosetta (HPF). The C.A.'s can confirm.

When running BOINC you can cache as many hours/days of work, maximum 7 as it will "expire" after that and wasteful extra copies being send out because someone did not return a WU within 7 days. UD can only use a cache facility thru UD_MON, but as BOINC is much more efficient and only 1 app including the cache settings, i'd strongly recommend BOINC.