On Sowter's transformers, if he doesn't specify which end should be grounded, it's not important. Your drawing is correct, but I would move the ground post to the input side (where your tonearm grounding wire may be coming in with the interconnects).
The wiring does need to be consistent between channels.
I would suggest ordering the transformers with the threaded grommet option from Sowter. That way you can leave the nut a little loose and turn them to get them optimally quiet once you have them setup in your system.