Multi car groups, people often forgot to take off the HC1T and HC1C jumpers. I usually take them off the master car, and all slaves up to my final car, which stays on. If repeaters are used, I sometimes take the jumper off the A channel to get loading correct. Remember it's supposed to be an End Of Line resistor when you leave something on, so make sure it's actually the end of the line.

90% of my odd, intermittent, hard as hell to duplicate, CAN issues have been due to piss poor CAN loading.

Absolutely!
And don't think because it has been like that for a year, 2 or whatever it must be right. I just found one last week that was one of the first 32 bit 50-04s, the car channel had loading resistors on the CPU, the machine room CNA, the car CNA, and both door operators! Worked fine until now.
Also important to remember that just because you have 60 ohms does not mean it's loaded correctly. Better to think of it like you should have 120 ohms of termination resistance on each end. Kind of what you just said.

1. The New 32bit CPUA, should the terminating jumpers be on car can? I have 60ohms with wires plugged in and 120 with removed on the wires going to CWIC, and 120 on IOC pins.

2. The voltage on can channels are 2.9VDC and 2.65VDC

2. That sounds really high, that's from a brand new CPUA? I have replaced CPUA cards for less variation than that (and solved the problem.). Now I'm curious what a good CPUA would measure without anything plugged in at all.

3. So you couldn't get a 16 bit CPU from Thyssen? Obsolete? Did they cut a deal on the 32 bit upgrade? I have never done it myself although I pushed really hard for it on a job with way too many I/Os for 16 bit. I think they offered to supply the hardware.