How to Cook Spaghetti Squash. There are a several ways to make spaghetti squash —roasted in the oven, zapped in the microwave, slow-mo'd in the slow cooker, or boiled on the stovetop. Sharing the best way to cut and cook spaghetti squash if you want long pasta-like strands and spaghetti squash that isn’t watery! Just cut the squash widthwise, into rings and roast it. HOW TO. When you're craving comfort food that's on the lighter side, this recipe is the perfect compromise. Trust me, spaghetti squash and meat sauce were meant to be friends. For the printable recipe, go. Anyway, today I’m sharing how to cook spaghetti squash two different ways – either in the microwave, or in the oven. I’m a fan of both methods, but for different reasons. The main benefit of cooking up spaghetti squash in the microwave is, of course, the fact that it’s done in 12 minutes – easy peasy, super quick. How to cook spaghetti squash four ways: in the oven, microwave, slow cooker, and pressure cooker (like an Instant Pot). For the most flavor, we love roasting the squash, but if you are short on time, use the microwave. This recipe will make four side portions or will generously serve two as a full meal. How to Cook Spaghetti Squash in an Instant Pot. Instant Pots have been growing in popularity every year since their initial release in 2010. We can understand why—they are one of the handiest kitchen gadgets that can truly do it all, including cooking spaghetti squash. Like all winter squash, spaghetti squash requires some time in the oven before it becomes tender enough to eat. The quickest way to get this side dish on the table is to cut the squash in half and cook it face-down in a baking dish.