Officials at the San Juan County Sheriff's Office told KRQE the shooter is in custody.
Police said the suspected shooter was "down" and did not give the conditions of the two victims in a press conference this morning.
"We have no reason to think there is any threat in Farmington at this time, but we are taking this advance action in order to secure all of our schools".
Aztec, in San Juan County, is a small town in northwest New Mexico, about three hours from Albuquerque, and Farmington authorities assisted in the shooting. Parents are able to pick up their children at 516 and Mesa Verde, after they are checked in and accounted for.
Schools in nearby Bloomfield, New Mexico, were placed on lockdown, but Bloomfield police said it was precautionary.
The Bloomfield Police Department is asking parents to stay away from the school until further notice.
This is a developing story. Check back for more updates.