Hi @Robert Freeborn, congratulations on the 1st flip.
In Atlanta, if the work being completed would normally require permits (Structural, electrical, plumbing, HVAC) then the city/county would want you to have the work permitted. To pull a permit on a structure that you do not plan on living in for the 12 months after completion, or if the structure is owned by a corporation, LLC, etc, (not sure if they research this) then they would require you to have a licensed GC to pull the permits.
If you plan to live in it for at least 12 months after the work is completed and it is not owned by a corporation, LLC, etc, (Again, not sure how they research this) then you can sign a Homeowner affidavit and work as your own GC and hire out the respective licensed trades to complete the work to be inspected.
If the work does not need to be inspected (Flooring, cabinets, paint, tile, etc) then you would not need permits nor hire a GC or have GC license.
As far as paying yourself, if you need the cash, then by all means you can pay yourself a "fair wage". I have done this, but now prefer to leave the money in the business because I can and because I don't have to pay taxes on the wage I pay myself.
Best of luck!