I would use at least Viton because of the heat. The Buna-N is gas and oil resistant but will not take the heat. They work fine in carbs and I also use them on the cam chain adjuster acorn nut. Being set back away from the cylinder, I guess that acorn nut doesn't get too hot because I've never had a Buna-N o-ring fail me there. Go to that Cycle O-rings.com web site and look at their intake manifold o-rings. They sell mostly kits for Suzuki carbs and they use Buna-N o-rings. However, for the intakes, they sell Viton because of the heat. They say Buna-N will burn up.
I think the sprinkling of red o-rings we find on the 650 are silicone. If you could accurately determine the size then sure, you could use silicone replacements. The problem is figuring out those sizes. It's hard to accurately measure an o-ring, even a new one. Silicone o-rings are expensive so if you goof, it costs you. I know, I have, lol.
I've used the black replacements in the Athena gasket kit several times now with no problems. I'm assuming they are Viton. I never used the guide ones because I've never had guides out but I have used the points/advance housing ones and the 4 for those sleeves that slip into the 4 outer stud holes on the top cover.