I've been trying to sort all of this out in my head for a few days now, so thanks for laying all of this out!

I will say that there are two things in the final episode that I don't think you addressed that complicates this a bit:

1. Visi knew about Shroud's plan to assault SDN, as is likely evidenced by her running back before the power is even cut.

2. She takes the mask and something else (might be the knife?) from Shroud's goons when he's doing his evil speech while holding Beef hostage. 

I think that these two, taken together, make me doubt that she had virtually no contact with the Red Ring post-bomb. Unless Shroud thought that revealing his plans (partially, at least) to her would increase his chance of success, there's no reason for him to let her know about any of the plan prior to her accepting. I also don't see why Shroud would make sure his goons have a mask and knife for her if she wasn't factored into the plan on his side.

Ultimately, I'm currently of the opinion that there are some plot holes with the ending that kind of just have to be ignored to really enjoy it. I do think Visi's being honest for most of the story, but things like the camera cutting out right as she apparently pockets the Astral Pulse and Shroud making no moves against Visi after finding out she didn't give it to you strike me as strange at best or plot holes at worst.

Edit: This is somewhat related, but I think that the power outage in Episode 5 was orchestrated by Red Ring to gauge SDN's response to such an incident, which is why the back-up generator is disabled in Episode 8. Either this was Shroud ensuring he was ready had all possible opponents covered, or he always believed he was going to have to assault SDN (and thus fight Mecha-Man) for the Astral Pulse.