Well I was able to get it fixed yesterday. I had the exact same problem as the OP. I was able to replace the bad section of factory wire. The top 2 pictures show the way the wire was routed from the factory. The pink wire was broken where it made a 90 degree turn through the hole in the foam (second pic).
I decided to replace the wire with a more flexible variety for the part that runs from the pad to out of the seat. I also routed the wire down the bottom of the seat instead of out the hole in the back (protected with split loom). I felt this would prevent any of the sharp bends that may have caused the factory wire to break. I carved a small depression in the foam so the split loom would sit flush (last pic).
L99 - 440 RWHP
Livernois 2c Cam & VVT/DOD Delete
Stainless Works 1 7/8" Long Tube Headers