save-while-active on IFS SAV does not save all files

We just switch our backup process to use the save-while-active options on both the SAVLIB and SAV commands we are running. The SAVLIB is backing up all files but the IFS SAV backup is not able to save 57 files. Just about all of these files are log files for various services (HTTP, WAS, etc). We have tried all the combinations of the two save-while-active parameters and get the same results. We are shutting down subsystems, then saving a few key libraries without save-while-active, then staring subsystems backup, then saving the rest of the libraries with save-while-active and saving the IFS with save-while-active. Is there a way to get the entire IFS to save on the SAV command?