I drove a car with those same brakes and manual master, and it was the scariest car I've ever driven as far as stopping power.

The bedding of the pads helped, but did not fix the issue. As above, you may have to go to a smaller diameter master, re-locate the arm on the brake lever for more leverage, or go to power brakes. I'd call Wilwood to see what they say, but I personally hate manual brakes.
Do you have the rod connected to the correct hole in the brake lever under the dash (the higher hole is manual brakes), or can you move it up and drill a new hole(watch the angle, needs to not be severe, plus the higher you go the less stroke you get so it's a balancing act)?
Jody