Fill a large pot with salted water and bring it to a rolling boil—this will take 8-10 minutes and gives you time for prep. While waiting, mince the garlic cloves finely, mince the shallot, juice the lemon (you'll need about 3 tablespoons), and drain the canned clams, reserving all the juice in a separate bowl. Chop the parsley and have your butter cubed and ready. Having everything prepared before you start cooking the sauce ensures smooth execution when things move quickly.
Once the water is boiling, add the linguine and cook according to package directions, stirring occasionally to prevent sticking. Start checking for doneness a minute or two before the package time suggests—I always aim for al dente so it has a slight firmness when bitten. Drain the pasta when ready, but reserve 1/2 cup of the pasta water in case you need it to adjust the sauce consistency later.
While the pasta cooks, heat the olive oil and 1 tablespoon of butter in a large skillet over medium heat. Once the butter is foaming, add the minced garlic and shallot, stirring constantly for about 1-2 minutes until fragrant and just beginning to soften. Be careful not to let the garlic brown, as this will turn the sauce bitter. This step develops the foundation of flavor for the entire dish.
Add the drained clams to the skillet and cook for 2-3 minutes, stirring gently to warm them through and allow their flavor to begin infusing into the oil and butter. Pour in the white wine and the reserved clam juice—this combination creates a briny, flavorful base. Simmer for 3-4 minutes to allow the wine to reduce slightly and the alcohol to cook off, which concentrates the flavors.
Remove the skillet from heat and stir in the remaining 2 tablespoons of butter along with the fresh lemon juice—this builds richness and brightens the sauce. Add the cream and red pepper flakes, then return to low heat and cook gently for 3 minutes, stirring occasionally. Season with salt and pepper to taste, then add most of the parsley, reserving a little for garnish. I like to taste and adjust the seasoning here because cream can sometimes mute flavors.
Add the cooked linguine directly to the sauce in the skillet and toss gently to coat every strand, adding a splash of reserved pasta water if needed to reach your desired sauce consistency. Divide among serving bowls and top each portion with freshly grated Parmesan cheese, the reserved parsley, and a lemon wedge for brightening. Serve immediately while the dish is hot.