From the code list in the FAQ section:
P1688 (M) Internal Fuel Injection Pump
Controller Failure
Internal problem within the fuel injection pump. Low
power, engine derated, or engine stops.
P1689 (M) No Communication Between ECM
and Injection Pump Module
Data link circuit failure between ECM and fuel injection
pump. Low power, engine derated, or engine stops.
Sounds like you either have a bad connection to your injection pump, or the electronics on the pump are bad.
Mike