@hammerheadfistpunch, as to the "balance", the hydraulic system is designed so that an equal amount of fluid flows to both sides on demand. This is accomplished by maintaining an equal length of brake line, and is not designed to be alterable to change the brake loading, side to side.
If all your parts are new, I would suspect air in the lines, which is moving up and down the line during operation. Bench bleeding the master cylinder, and then bleeding the entire system, that means all four wheels and the LSBPV, would be next. If you are certain you don't have any air in the lines and the problems persists, check the disc runout,
or do this when you start the bleed operation, your choice.
here's the FSM answer to your LSBVP question:
I have been told that Toyota has the "A" dimension set at 90-mm prior to shipping and that most stealership techs don't touch it unless they're specifically asked to. I recently replaced mine and had to twist arms to get them to verify the balance, per the FSM. They didn't have to adjust it; I guess I got it right.
I won't give any advice on changing the geometry, since you didn't ask for it.