Turn out the risen dough - onto a floured surface. Knead the cheddar into the dough. Knead for about 5 minutes. Add more flour if things get to sticky.
Line your baking sheet with parchment paper and preheat oven to 425 degrees.
Fill a large soup pot with water and add ¼ cup of barely malt syrup - agave or coconut sugar will work too, but barley malt syrup is most authentic.
Divide dough into 9 small rounds. Knead rounds and press into small balls. Press finger through the center to create a bagel hole.
When water is boiling and bagels are formed, boil about three bagels at a time for 1-2 minutes. When done, using a mesh strainer, transfer the bagels to your parchment paper lined baking sheet. Repeat with all your bagels.
Sprinkle coarse sea salt over top the bagels on the baking sheet. You can also add a few extra pieces of cheese and slices of jalapeño on top, if desired.
Bake bagels at 450 degrees for 25 minutes, or until bronzed on top, poofy, yet still fluffy and soft inside.
Remove bagels from oven. Cool bagels on a baking rack. If not serving all the bagels right away - when they are mostly cooled, slice and freeze as halves - this makes it easy to pop them in a toaster. Enjoy!