In a bowl, stir together the chia seeds, almond milk, maple syrup, and vanilla.
Let the mixture sit for about 5 minutes, then stir again to break up any clumps.
Cover and refrigerate for at least 2 hours, or overnight, until the pudding thickens.
Add ½ cup of blueberries and the Greek yogurt to a blender and blend until smooth, or pulse a few times if you prefer some texture.
Spoon a layer of the blueberry–yogurt mixture into each 8-ounce cup, then add a layer of chia pudding.
Continue alternating the blueberry mixture and chia pudding until the cups are filled.
Top each serving with the remaining fresh blueberries.
Chill the assembled puddings for at least 30 minutes before serving.