Wow not much variety in the responses haha.
Depending on the day my favorite game could be anything. Skies of Arcadia Legends and The Zelda series on the Gamecube. Dark Cloud 1 and 2, Rogue Galaxy, and Final Fantasy 12 for the PS2. The 3DS currently has my favorite games of all time though which are Shin Megami Tensei 4, Cave Story 3D, Virtues Last Reward, the Etrian Odyssey series, and definitely Shovel Knight.