When it comes to those old spike holes through the Fascia, sealing them up is definitely a solid option if you're not planning on replacing the Fascia wrap. It'll help keep water from getting in and causing any damage.
As far as recommendations go, I would suggest looking into some silicone-based sealants. They're great for sealing up small holes and gaps, and they'll hold up well over time.
You could also consider using some roofing cement or even some epoxy if you need something a little more heavy-duty.
Either way, just make sure to clean the area thoroughly before applying any sealant. That'll ensure that it adheres properly and does its job effectively.