A NYCHA executive’s secretary has been arrested in Brooklyn after cops found 1,800 sleeves of heroin in her own housing authority apartment, officials said Friday.

Cops arrested Michelle Flores, 43, as part of a months-long investigation into alleged drug dealing by her live-in partner, Javier Arroyo, court sources said.

Arroyo, 44, sold heroin eight times between September and October, according to a criminal complaint pertaining to the Thursday arrest.

Between drug deals, cops saw Arroyo coming and going from Flores’ Ingersoll Houses apartment in Downtown Brooklyn, sources said. When cops went to bust Arroyo on Thursday morning, Flores was also home.

The couple had a child together, who is now grown, the sources added.

Flores served as secretary to chief financial officer Plachikkat Anantharam, sources said. She makes just over $56,000 per year and has worked at NYCHA since at least 2008, according to SeeThroughNY.

Flores was released without bail following a Thursday night arraignment in Manhattan court.

Arroyo’s bail was set at $15,000. It’s unclear if he was released.

Three NYCHA employees were previously charged with drug-related crimes in January.

NYCHA did not immediately return a request for comment.