I think my top would be Miphisto X Fujimoto (unsure if there a ship name) Shizaya (Shizuo and Izaya) and Grelliam (Grell x William). I can’t decide on which one I want to be my #1 though.
Gon x Killua, Sayaka x Kyoko, Eren x Armin, Yuri x Victor, Haruhi x Hikaru, Gray x Natsu, Izaya x Shizuo, Light x L, Edward x Roy and Sesshomaru x Kagome. Wow. 80% Of my favorites are yuri/yaoi.