Nutmeg can stay in your system for between 24 hours to 48 hours.
It depends on how much Nutmeg you ingested since the more Nutmeg you ingested the longer it will take for the Nutmeg to clear your system.
Usually Nutmeg will clear your system and be totally out of your system within 24 to 48 hours but sometimes the Nutmeg might stay in you system for a 4 days.
That is if you took in too much Nutmeg especially if you're getting high off of Nutmeg which is entirely possible if you ingest enough of it.