Heat the molasses, ½ cup butter and ¼ cup brown sugar in a saucepan until the molasses comes to a boil and the sugar is dissolved.
Remove from heat. Stir in the miso and fresh grated ginger.
Toast the wheat germ in a small skillet over medium heat, until the wheat germ is golden-brown and toasted.
In a medium bowl, whisk together the wheat germ, flour, baking soda and spices.
Add the molasses/butter mixture to the flour mixture and stir with a spoon or spatula until well-incorporated.
Cover the bowl with plastic wrap and chill the dough for at least 2 hours.
Bake the cookies
Preheat the oven to 375 °F . Line 2 large baking sheets with parchment paper.
Use a teaspoon to roll the dough into 48 small balls. Arrange on a baking sheet, and press each ball down firmly with the heel of your hand to flatten it. Sprinkle with sanding sugar if you like.
Bake for about 7 to 8 minutes in the oven.
Remove the baking sheet from the oven. Let the cookies sit and cool for 5 minutes before attempting to move them to the cooling rack. After 5 minutes, use a spatula to transfer the cookies to the cooling rack.
Make the cream cheese filling
Use an electric mixer to mix together 4 tablespoons of room temperature butter and 4 tablespoons of cream cheese. Gradually add 2 cups of confectioner's sugar and 1 teaspoon of cinnamon.
Use a knife to spread the cream cheese mixture on 24 of the cookies. Sandwich with the remaining 24 cookies.
Notes
Calorie count includes 2 cookies sandwiched together with cream cheese filling (169 calories). Each cookie individually has 50 calories.