Alright, so I figured out a work around to get the game to work with Active ATB from the start.
I put a write on the Initial Color of Menu's and after a minute or so of holding "run" saw that it escaped its loop to... end up 3 bytes from it's initial starting point. But this is all that I ended up needing.
In LoRom/HiRom...
0x19B2B - A2 00 30 (LDX 0030)- Default Window Color for new files.
0x19B2E - 8E AA 16 (STX 16AA)- Where to store default colors.
In ROM...
0x9D2B - A2 00 30 (LDX 0030)- Default Window Color for new files.
0x9D2E - 8E AA 16 (STX 16AA)- Where to store default colors.
With this you can... well change the starting file to any color you like But more importantly for my purposes I switched its function.
I change 8EAA16 to 8EBD16 - Making it change the value at 7EBD16 causing Active ATB to activate. The only downside is that the game starts with a black menu instead of a blue one. A small price to pay and can be easily changed. Besides, Black always appealed to me more, haha.

I had no idea there was a choosable formula based on physical attack power! I swear I never saw that in any earlier version of the editor. Great find, considering all named abilities don't use it!

2: How interesting. Though it is clearly based on Physical Power, Magical Defense is the stat taken into consideration.

3: Element, whether it be of weapon or set by the ability itself, is not taken into consideration.

4: Spell power does nothing to the power of this formula.