I think you do not have to change the SQL server setting. Normally the DB engine is repository for JDE and within Enterprise server only.
During submitted the report, just change the submission mode to Server build instead of client build, the output will be captured the Enterprise server date/time in PDF format.
You can change the CNC setting in your deployment server which is best practise. The Enterprise Server (DB engine) just do normal housekeeping job & DB backup unless you have big ASU/ESU have to apply for them.