Michael,
Have you ran the OOBE demo, this in Linux/MQX on both cores, each with a dedicated serial port, one using the TWR-SER, the other using the Virtual Serial Port, both running at 115200, I can't say I've noticed errors when using that, you can also use the jumpers on the rev G boards to swap the serial ports over so put A5 to TWR-SER or VSP to test bigger traffic.
It seems unlikely, but have you tried re-programming the app, or have you been able to test a second board?
Ross