Then you could try and give a location for a log file
Then you could try and also give a workflow directory (not sure if this will help)
Then there is this hint by @ipazin how to modify log setting in the inner workings of knime or set a configuration file.
And finally there is this article elaboration on batch execution. Maybe this gives further ideas.
The error message sounds like there could be a problem with the settings of logging in general. So maybe explicitly telling the system what to do with logs could help.