In 1997, Eitan was co-author of the Beilin-Eitan Agreement presented to Abu Mazen (Mahmoud Abbas).

Although he retained his seat in the 1999 elections, they were won by the Labor Party-led One Israel alliance and Eitan lost his place in the cabinet.

He was re-elected in 2003, 2006 and 2009, after which he briefly served as temporary Knesset speaker due to him being the longest-serving MK alongside Binyamin Ben-Eliezer.

In February 2021, he underwent a deep brain stimulation procedure at Hadassah Medical Center in Jerusalem, which greatly improved his condition and enabled him to lead a normal life again.

[4] Eitan was a resident of the town of Kokhav Ya'ir, and was a founder and director of the settlement project.