Mark,
If you want more clamping pressure (at the rotor) you must reduce the diameter of your M/C not increase it. The smaller M/C will give you a resulting higher line pressure as you will be exherting the same pedal force on a smaller cross sectional area. Your calliper piston bore sizes also influence pedal travel and applied effort.
Below is a spread sheet that I developed with John Alderson to give an indication of what combinations yield what line pressure outputs for a given pedal effort etc. I have only just added the pedal travel portion (may have a few gremlins). This prodominantly applies to a dual master system with a balance bar but you could use it for a single by putting the same M/C bore in for the 2.
As you will see, M/C size and pedal ratio will ultimately determine your line pressures and it's just a case of matching everything up. On the first sheet you need to put your wheel diameters, Vehicle mass, required deceleration force(G's) and the desired front to rear brake bias. Just punch in your proposed specifications on the second and have some fun

I might see if Simon will put it in the tech section when I'm sure it's right
Download Attachment:
Brake torqueV2 comparrison.xls29.7 KB