Young was with Reprise from 1969 to 1983, took five years out to record on Geffen and returned to Reprise in 1988, Billboard.com reported.
His next studio album, "Prairie Wind" will be released by Reprise Sept. 27.
Reprise said the new deal will include a series of archival releases featuring studio recordings, rarities and live material.
In a release announcing the deal, Young noted: "When you're with a company that long, it's like a family."
Rosie O'Donnell unveils nearly 50-pound weight loss
Members of Congress to keep receiving porn magazine