It's been a while since I monkeyed with this issue, but I believe you can use a 350f brake pedal and cut it down to the length you want. Weld on the footpad, and you can bolt it up and go. Another option is to cut and re-weld the brake arm pivot point further up the frame to the same position it is on the 400f frame... although I don't know if that will actually fix the clearance issue.
Those rear sets would fix the issue, but they aren't ideal rear sets. They place the driver's pegs where the passenger foot pegs would have been. That's too far back for good control of the bike. You want the pegs further forward where you can more easily shift your weight onto them. There are other rear set manufacturers out there. You might want to check 4into1.com among others.
Regards,
Camelman