Officially it was ALttP (#4, GB[C?]); technically it's the same game as #3 but with slight changes. But in my heart I'll always feel the most fondness for OoT (#5,N64).

Other notes:

• I hated #6; the 'gimmick' is still "time" and it's implemented in a much more unforgiving way. This is a complete shame; as I think this game could've told a much better story without the 'gimmick' being so tough.
• #8 is half identical to #3 & #4; and half identical to #10
• I don't care for #12 or #13 either; I really hated the direction(s) the stories went in both cases and the gameplay 'gimmicks' once again interfered with the nature of the game mechanics that I do enjoy.
• Several Major Zelda games are completely missing from this list; including the titles featured on the Nintendo DS family of system(s) (NDS/DSi/3DS)

Those missing titles are:

• Spirit Tracks [NDS/DSi]
• A Link Between Worlds [3DS]
• Phantom Hourglass [NDS/DSi]
• Oracle of Ages [GBA] (This is the other half of the Oracle set)
• Wind Waker HD [WiiU]