I am pretty sure that setUserOverrides.sh is not the right place to specify Java options so check that the options you have specified are actually being applied.
If you have specified the options properly (normally in setStartupEnv.sh for WebLogic, for the EDQ_Managed_Servers group, or in catalina.sh for Tomcat I think), then diagnosing the issue would require a Service Request with full logs, some indication of the data volume and job details, and ideally a JVM flight recording.
In the EDQ Job iam getting the error 'Unhandled exception whilst executing tasks: unable to create new native thread'. when a process is run in the job.
But when we run the process individually it is working.
Please let me know if any threads / cores needs to be set.
This means your O/S is not allowing the OS user running EDQ to run enough processes.