Press the extra-firm tofu for 15 minutes to remove excess moisture, then cut into 1-inch cubes.
In a small bowl, whisk together tamari, rice vinegar, grated ginger, minced garlic, red pepper flakes, sea salt, and black pepper.
Heat the toasted sesame oil in a large non-stick skillet or wok over medium-high heat.
Add the tofu cubes to the skillet and sear for 8-10 minutes, turning occasionally until all sides are golden brown and crispy.
Toss in the broccoli florets, sliced bell peppers, and shelled edamame, sautéing for 5-6 minutes until the vegetables are tender-crisp.
Pour the prepared sauce over the mixture and sprinkle with nutritional yeast, stirring constantly for 1-2 minutes until the glaze thickens and coats everything evenly.
Serve immediately while hot.