In a food processor, combine the pumpkin seeds, cilantro, cotija, chipotle chili, lime zest and juice, garlic and ¼ teaspoon pepper. Pulse until roughly chopped, 5 to 10 pulses, scraping the bowl as needed. Add the oil and pulse until incorporated, 5 to 10 pulses. Transfer to a small bowl, then taste and season with salt and pepper.