01 - Preheat oven to 400°F. Line a rimmed baking sheet with parchment paper and set aside.
02 - Using a sharp knife, carefully halve the spaghetti squash lengthwise. Scoop out and discard the seeds and stringy fibers from the center. Lightly brush the cut sides with olive oil if desired.
03 - Place the squash halves cut-side down on the prepared baking sheet. Roast for 35 to 40 minutes until the flesh is fork-tender and the strands separate easily when pulled with a fork.
04 - While the squash roasts, melt the butter in a medium saucepan over medium heat. Whisk in the flour and cook, stirring constantly, for 1 minute to form a smooth roux.
05 - Slowly pour in the milk while whisking continuously to prevent lumps. Bring the mixture to a gentle simmer and cook for 2 to 3 minutes, stirring constantly, until the sauce thickens enough to coat the back of a spoon. Remove from heat and stir in the cheddar, Parmesan, garlic powder, ground mustard, salt, and black pepper until the cheeses are fully melted and the sauce is smooth.
06 - Once the squash is cool enough to handle, use a fork to scrape the flesh into spaghetti-like strands. Transfer the strands to a large bowl and gently toss with the cheese sauce until evenly coated.
07 - Transfer the coated squash mixture to a greased 9×13-inch baking dish. In a small bowl, combine the gluten-free panko, Parmesan, and melted butter. Sprinkle the topping evenly over the surface. Broil on high for 2 to 3 minutes until the crumbs are golden brown and crispy.
08 - Serve warm, garnished with additional Parmesan or fresh herbs as desired.