Kooka- A very slight, non-pressure contact of the pads to disc is not uncommon. You do need to break in the new pads by doing several firm stops from a semi-sporty speed. Repeat 10-12 times. If your disc has the wear ridges that occur due to the placement of the disc's drilled holes, the pad break-in should produce better braking performance.
If you still have the squeaks after breaking in the pads, try a small dab of anti-rattle paste on the back of the pads where they contact the brake piston.
Did you fit organic or metallic pads? Organic good. Metallics will wear the disc muy pronto.
And thanks for the kind words regarding my timing chain adventure.