ARK Roofing out of Apex can handle it.
Repairs are their only focus, so they will not try to sell you a new roof.
BBB Review of Ark Roofing Company in Apex, NC
Neoprene pipe boots last from 9 to 15 years before rotting out, when installed correctly.
Most boots are "1 size fits all" with concentric rings in the opening that can be removed to allow the boot to go over multiple pipe sizes.
The rings are meant to be pulled out by hand, or with pliers, so the boot is not damaged.
But, a lot of roofers cut the rings out with a knife and cut into the boot, and it cracks open further, leading to early repairs.
No sealant is needed on the boots, but some guys just can't help themselves, and goop things up with various goop.
You might ask for lead pipe boots as a replacement. They cost a little more, but lead will outlast neoprene by many years. Lifetime of the roof. Unless the squirrels start to gnaw on the lead. Yes, it happens.