The injector clips are different on a late '99 to '00 Contour, so the answer is no, you can't use that harness
UNLESS you swap to lateer style injectors with the matching electronic clip. I think I still have a picture of those injector changes somewhere... Earlier style are rectangle and the later style are oval...
hummmmmm, I don't have the one showing the differences loaded to my site any more, but here are the early style connectors which are rectangle. The newer returnless ones are oval...

The knock sensor is located on the firewall side of the block. The sensor has a hole in it that a bolt passes through in order to mount to the block. The newer style blocks and sensors have a smaller hole than the older style block/sensor does, so you would have to drill/tap a newer 3L block to accept the older/larger bolt and sensor. You should do it this way rather than change the knock sensor to the newer type to avoid wiring problems and any calibration differences in the sensor itself.