I scanned through the Wikipedia articles of ceremonies and noticed that in some years, the following people were listed as dual nominees for the same show:
Dick Clark/Bill Cullen ($20k Pyramid, 1977/4th & 1978/5th)
Bob Barker/Tom Kennedy (TPIR, 1986/13th)
Vicki Lawrence/Bert Convy (WLOD, 1988/15th & 1989/16th)
Bob Goen/Pat Sajak (Wheel, 1990/17th)
Bob Barker/Doug Davidson (TPIR, 1995/22nd)
I wasn't able to find info on the official Emmy site to confirm. Were these people nominated in tandem with their counterpart from daytime/syndication (like Ben Stein and Kimmel/Pimental/Iacono were for Win Ben Stein's Money—although for WBSM both were hosting the same episode simultaneously), were they nominated separately (but listed on the same line by whomever edited the articles)...or is this just wiki bull?
(Based upon Doug Davidson being listed, the third one is my best guess...)