Spiralize the zucchini. Set aside.: The moment you spiralize, you will notice the clean, crisp sound of the strands and the bright green color that promises freshness. The why is simple, the long strands mimic pasta and allow for even coating by the sauce, so take a few seconds to ensure uniform size to avoid uneven cooking. Troubleshooting tip, if the noodles are too long they can tangle, so loosely coil them into a shallow bowl; if they seem watery, gently blot with a paper towel to remove excess moisture before cooking.
In a small bowl or large liquid measuring cup, whisk together the lemon juice and cornstarch. Set near your stove.: As you whisk, the lemon will lighten and the cornstarch will dissolve into a silky slurry that looks almost glossy, which is important because it will thicken on contact with heat. The purpose is to create a bright, clingy sauce that binds the vegetables, so whisk until completely smooth. If lumps appear, strain them out; a lumpy slurry can create uneven texture in the finished dish.
In a large skillet, melt the butter over medium heat. Add the shallots and saute until soft, about 3 minutes.: You will hear a gentle sizzle as the unsalted butter warms and smells will start to unfurl from the shallot, a soft sweet aroma that signals the base is forming. Sauteing until soft ensures the shallot releases sweetness without browning, which keeps the sauce delicate. Avoid turning the heat too high, because browning will shift the flavor from sweet to nutty and can overpower the lemon brightness.
Add the garlic and cook just until very fragrant, about 30 seconds.: The brief, fragrant burst from the garlic is crucial for layering savory notes; you will notice the room fill with a warm scent almost immediately. This short cooking time prevents any bitterness from developing. If you smell a sharp, acrid scent, the garlic is burning, so reduce the heat and stir quickly to prevent an off taste.
Add the cherry tomatoes and stir to coat. Let cook 2 minutes, just until the tomatoes begin to soften.: As the cherry tomatoes warm, they will start to sigh and release sweet juices, and their skins may wrinkle slightly. This step builds a natural, fruity base for the sauce. Cook just until they yield, because overcooking will fully collapse them and make the sauce watery rather than silky. If you want more concentrated flavor, gently press a few to release juices sooner, but do not mash the entire batch.
Add the lemon juice mixture and red pepper flakes. Let simmer 1 minute.: When the lemon slurry hits the hot pan, you will see it thicken almost immediately, creating a glossy coating that glazes the tomatoes. The small amount of red pepper flakes will bloom in the hot liquid and lift the savory profile with gentle heat. The why is that the acid activates the cornstarch to set into a sauce; a common error is to add the slurry to a too cold pan, which prevents proper thickening, so ensure the pan is hot but not aggressively boiling.
Add the zucchini noodles. Toss them with the mixture, using a pair of tongs to coat them as evenly as possible with the sauce and to break apart the noodles. At first the mixture will seem dry.: The first contact between the hot pan and the zucchini strands causes a slight hiss and the noodles will begin to wilt; tossing helps them heat evenly and encourages the vegetables to release their liquid, which will then coalesce into the sauce. The why here is texture control, you want the noodles tender yet still springy. A frequent misstep is overcrowding the pan which leads to steaming instead of sautéing, so if needed work in batches or use the largest skillet you have.
Add the Parmesan cheese. Keep tossing and cooking. As the zucchini cooks and gives up its liquid, it will form a sauce that coats the pasta. Continue to cook and toss, until the zucchini noodles are al dente, about 4 minutes.: When the Parmesan cheese meets the warm pan, it melts into the juices and thickens into a creamy cloak; you will see tiny ribbons of sauce forming and smell a savory, nutty note. The technique matters because low, steady heat allows the cheese to incorporate rather than oil separating. Avoid heating too high, which can make the cheese clump or become grainy, and do not overcook the noodles, as they will lose their pleasant bite.
Add a good pinch of salt and several grinds of pepper, then toss in the basil. Taste and adjust seasoning as desired. Serve right away, topped with extra Parmesan cheese.: The final seasoning step is where everything comes together, the Kosher salt and ground black pepper sharpen flavors and the basil releases a fragrant, herbaceous top note when it hits the warm noodles. Toss gently so the basil wilts just enough to perfume the dish without turning limp. A common mistake is over seasoning before tasting, remember the Parmesan cheese adds salt, so season gradually and finish with extra cheese at the table if desired.