Toast the spices: Place your small saucepan over medium-low heat with a dry pan (no oil or water). Add the cinnamon, nutmeg, and cloves. Swirl them continuously for 30 to 60 seconds until highly aromatic.
Combine everything: Turn off the heat for a moment. Add all remaining ingredients straight into the pot with the toasted spices: the diced Honeycrisp apples, dried cranberries, brown sugar, hot honey, minced garlic, apple cider vinegar, water, diced onion, minced ginger, and salt. Give it a thorough stir to dissolve the sugar.
Bring to a boil: Turn the heat up to medium-high and bring the entire mixture to a rolling boil.
Simmer and thicken: Immediately reduce the heat to low. Let it simmer uncovered for 25-35 minutes, stirring occasionally. Cook until the apples are tender and the liquid has reduced into a thick, glossy syrup that binds the chutney together.
Cool: Remove from heat and let it cool completely before serving.