So, I finished the Mages Guild quest line and thought I might try the Necromancer's Guild at Kvatch Aftermath.
First assignment: Kill a mage in a cage. Done.
Second assignment: Steal a mortar and pestle from the Arch-mage.
The game goes crazy (probably because I am the arch-mage and I can't steal anything that is already mine- figured that one out too late). So, not wanting to continue with a quest line I can't even begin, I deactivate the Kvatch Aftermath mod, but I'm still kicked out. The only way to get back is to get the seven recommendations again and I can't do that because everyone in Bruma is dead.
Tried UESP. Did their six line "SetPCExpelled ..." thing and still nothing. I'm now at a loss on how to proceed.

Is there anyway to get back to where I was before I started the Necromancer's guild quests? And code I can type into the console?
Any suggestions?

Thank you.

If you've been kicked out of the guild, you need to go talk to Raminus Polus at the Arcane University. He'll give you a quest the you need to do to get back in.

Edit: The mod may have messed up your save beyond fixing, though. Hopefully you have a save from before you started that quest.

Rominus wants me to get the recommendations from the seven city guild halls. That's not possible.