Preheat oven to 375° F. Prepare 2 baking sheets with parchment paper.
In a large bowl, gently whisk flour, salt, baking powder, and baking soda.
In a separate large bowl, use a hand or stand mixer to beat butter, brown sugar, and honey at medium-high speed until light and fluffy, about 2 minutes. Scrape down the sides as needed.
Add eggs and vanilla, and beat for an additional 2 minutes until well mixed.
Add flour mixture to the bowl slowly, and mix on low speed until just incorporated. Stir in quinoa, oats, dark chocolate chips, cranberries, and almonds.
Drop dough on baking sheets in 2 Tablespoon portions, spacing 1” apart.
Bake for 12-14 minutes or until edges are golden brown. Transfer to cookie racks to cool. Store in an airtight container. For best flavor, eat within 1-2 days or freeze for up to 3 months. Enjoy!