Ngayoh became the vice governor for people's welfare in 1999 by Governor Suwarna A.F., ending the office's year-long vacancy. Ngayoh's appointment was seen by Akiko Morishita, a political researcher, as a way to garner support from the Dayaks. Ngayoh's work scope as a vice governor was expanded in 2000 to include matters relating to the development of the province. After Suwarna's term was set to expire in 2003, a gubernatorial election was held to elect a new governor. As Suwarna had only served for a single term, he was eligible to run in the elections. Suwarna picked Ngayoh as his running mate and funded Dayak community meetings in East Kalimantan to attract support from the Dayaks. In return, the Dayaks made Suwarna their tribal chief and instructed Dayaks to support Suwarna. The gubernatorial election, which was held on 2 June 2003, saw three pairs of candidates running for the office of Governor and Vice Governor. Suwarna Abdul Fatah and Yurnalis Ngayoh ran as independent candidates,
Awang Faroek Ishak and Abu Thalib Chair were endorsed by the
National Mandate Party and the
National Awakening Party, and Imam Mundjiat and Hifnie Syarkawie were endorsed by the
Indonesian Democratic Party of Struggle (PDIP). Although PDIP officially supported Mundjiat and Syarkawie, Suwarna's electoral team bribed PDIP
MPs to vote for Suwarna and Ngayoh. PDIP's defection from their candidate resulted in a victory for Suwarna and Ngayoh with 24 out of 45 votes. Suwarna and Yurnalis were inaugurated for a second term on 25 June 2003. Suwarna's governorship was later supported by PDIP at the expense of Imam Mundjiat, PDIP's chairman in East Kalimantan. The Dayaks lauded Suwarna and Ngayoh's victory in the election. At an opening statement in an all-Dayak conference, a speaker stated that "God has given us a chance in this
reformation era. We have a governor who understands our situation and an indigenous [Dayak] as the vice governor." == Governor of East Kalimantan ==