Break Pedal too high

AFAIK the pedal is supposed to hit a rubber up-stop at the top of it's stroke but I don't see it in your pic.
If it was mine, I'd just fabricate a new up-stop, and adjust the M/C length to match and make sure the compensating port is still open.
Then If I felt the need, I would maybe raise the gas-pedal. But if you do that, you will need to fabricate a down-stop for that one, so you don't bugger the throttle-linkage.