Former winners Nigeria, Ivory Coast and Zambia lose at home.
Atsu is one of several high-profile players omitted by Kwesi Appiah.
Several Africans have been voted onto various Fifa committees.
Waris grabbed his 9th goal of the season in Lorient's 5:1 thrashing of Metz.
Liberia in freefall in latest Fifa rankings
Kwesi Appiah returns as Ghana coach on a two-year contract.
Ahmad won 34 of the 54 votes in the election.
Konadu has been named Ghana caretaker coach for a second spell
Thomas Partey has been at Atletico for six years.
Cameroon climb 29 places in Fifa rankings.
Ghana
AFRICA CUP 2015 - RUNNERS-UP
GROUP C QUARTER-FINALS Semi-Finals FINAL
Nations Cup appearances: 19
Best result: Winners (1963, 1965, 1978, 1982)
Coach: Avram Grant (Israel)
Key players: Asamoah Gyan, Andre Ayew
Fifa ranking: 37
Ghana have reached last four Nations Cup semi-finals.
The Black Stars raced to four titles but have since been eclipsed by Egypt (seven) and have not lifted the trophy for 33 years.
Former Chelsea coach Grant only took charge last month.