By "hide in the chaff" I'm sure you are not implying for him to mislead.
Find a consulting service/interview prep that will tell how to best couch your issue. If flying formation at night wasn't your thing, and you've got positive endorsements in all other things from your Commanding Officer, the regionals wont hold it against you. Several years of no other issues, and you'll be in great shape for AK, and good shape for an actual major?