Blend the pineapple chunks until smooth to create the yellow layer base. Stir 1/2 cup of the vanilla yogurt into the pineapple puree until evenly combined.
Blend the mango chunks until smooth to create the orange layer base. Stir another 1/2 cup of the vanilla yogurt into the mango puree until evenly combined.
Spoon the pineapple-yogurt mixture into the bottom of four clear glasses, dividing it evenly among them.
Add the mango-yogurt mixture on top of the pineapple layer in each glass, again dividing evenly.
Top each parfait with the remaining 1 cup of vanilla yogurt, spreading it gently to form the final white layer.
Drizzle 1/2 tablespoon of honey over the yogurt in each glass, then sprinkle 1/4 cup of granola on top of each parfait before serving.