Scott,
You want to use the same ISO and exposure for all of your FLAT frames for an individual session so be careful using any autoexposure modes. I shoot my FLATs using MANUAL mode. Actually my Nikon D5300 does not recognize my telescope as being a valid lens so I am forced to use manual.
I shoot my FLATs the next morning, I always try to evaluate a single FLAT frame using the CaLIGHTs create master feature just to ensure no saturation and good RGB balance before I dismantle anything.
The Center-Weighted option would be my choice but I never use an autoexposure mode when taking FLATs.
Peter