Well, I might as well jump in head first and post my opinion on it all. Please bear with me, as I really suck at writing.
To start off, the story arc in questions doesn't appeal to my personal taste. I read one of them, but you know what? It's just not for me. I will probably keep it if I ever have kids. At least some kids might like it, and if it pleases them, then good for them. I don't like the idea of having a lot of stories like this, but as it has been said before, this is what is drawing in the younger crowd. And it's just a short, not like Archie is diverting their main story into a 20-issue treasure hunt. I don't like it, but I will respect it for its point and purpose. I hope it draws more kids into Sonic the Hedgehog.
As far as what is happening with the series as a whole, I guess I expect to see this happening. It all comes down to business procedure. I don't like it one bit, but I know that a business would be willing to make me unhappy if they changed something in a way to make three or four other people happy, because that is more profitable for them. Seems to me the reason SatAM isn't being respected is because the younger audience aren't respecting it, likely because they have never seen the shows and can't connect emotionally to the characters. Does a company try and take the time to creatively write an old series into the hearts of the new readers, or rely on the already-existing fanbase of the newer stuff? It seems more profitable for them to rely on what the next generation is getting in to. If they respected the SatAM series more, I would be willing to pay more into getting the series, but at what cost? How many kids who don't know what SatAM is would stop reading it because they don't want to learn a whole new series? Or because their favorite, new shiny characters aren't given more attention? This kind of thing does happen, and makes for a nightmare to balance out.
What I would like to see is a new comic series, a series written to continue Sonic SatAM in all of its glory. A series written by people who can show respect to the series without adding the additional baggage to the series. A comic that can breathe new life into this tenured vet, and make me happy. Something that I would be willing to spend money on, and not have the politics of business etiquette get into the way. And, you know what?
We have that. It may not be Archie, but I trust it will stick to the respect of the series and does give me my (long awaited) third season to the show. Archie will never be considered as an acceptable outcome for me, but simply more of an alternate ending that you may or may not like. Doesn't mean it's all bad though, just another one of Sonics many cascading universes that never allign with each other.
-- It's not whether the glass is half empty or half full - it's the contents of the glass that counts.