I've just fitted a new door and have had to replace my flush mount contact with a surface version. I noted the colours of the wires and also the position that they were in. I've come to fit the new contact and it doesn't appear to work as my alarm keypad flashes up trouble (amber light)
The old contact looked like this:
Yellow wire into the top silver screw, blue into the top brass screw.
Then a resistor wired from the yellow wire to the other silver screw at the bottom, and another resistor wired into the blue wire also then into the same silver screw that the other resistor went. (hope your still with me).
Now my new contact looks like this:
Honeywell Magnetic Contact EMPS-85W
whilst entirely agreeing with Eric's sentiment and without giving much away you only mention the 2 cores of your alarm loop, but the other 2 (red/blk?) which form the anti-tamper loop must be joined together also.
In good door contacts they will go to a pair of contacts which break if switch removed from door frame, in cheaper ones without such contacts they must be joined & insulated inside switch case.
I believe this to be your problem as you are only getting tamper not full alarm.
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