Line two baking sheets with parchment paper.
In a large bowl, combine the butter, brown sugar and honey, and beat at medium-high speed until light and fluffy, about 2 minutes. Scrape down the sides of the bowl. Add the whole wheat flour, regular flour, cinnamon and baking soda and mix on low speed just until blended and the dough comes together, about 30 seconds. If the dough seems dry add 1 tablespoon water at a time, until the dough comes together.
Place the dough onto a lightly floured surface. Roll out the dough into a rectangle, about 1/8-inch thick. Cut out 3-inches squares and place them about 1 inch apart on the prepared baking sheet. Repeat with the remaining dough. Cover the trays and place in the fridge for 30 minutes or up to 4 days.
When ready to bake the cookies, preheat the oven to 350 degrees F. Bake the cookies for 10 minutes and then rotate the baking sheet. Bake for another 6 to 8 minutes, or until the cookies are golden to dark brown and just firm to the touch. Let cool for a minute on the baking sheets, then transfer to a cooling rack. Let cool completely (they will crisp up as they cool).
Once cool, dip each cookie into the melted chocolate until half way submerged. Place on the parchment lined cookie sheet and allow the cookies to set up and dry for 30 minutes or 10 minutes in the freezer. Store in a cool place for up to one week.