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Yes as stated they are being saved to the .var file.

How do I know what release of Probe Basic I am running, the about does not have any release versions listed. I installed via the repositories. I did upgrade via apt....

python3-qtpyvcp/develop,now 5.0.2-19.dev amd64 [installed]
python3-probe-basic/develop,now 0.6.0-118.dev amd64 [installed]

The github pages shows 0.4.0, so not sure if I have the correct release.

I don't know anything about this device, but it doesn't hurt do a "ethercat rescan" after you made changes to the device.

in general, FPGAs and microcontrollers also have undefined outputs at startup, so there should be a pullup or donw resistor on each one (all are floating by default).

in the case of the shift register, i'm not sure right now
they are always set to output and i thought that they are always set to 0 at first.

you can use as many of the same plugins next to each other as you want and as much space as you have

for modbus (frame IO), it should always be on the master FPGA,
I'm not sure if it works properly on a slave.
For encoders with index I have to check again, because there is an inout pin.

the uart plugin for connecting several FPGAs doesn't have much to do with modbus, it can simply use RS485, so that's not a problem either.

Ah, yes. ping (3,4) indeed do show the correct voltage. But now I'm completely confused where the ground from the drive and the cable shielding should be connected. 

If I understand the manual correctly:

1. The twisted pair wiring shield should be connected to the 7i77 GNDN (pin 3), which is now used for the +-10V signal
2. The drives common or GND signal should be connected to the 7I77 power GND with a separate wire. Where is the power GND on the 7i77? 
   
   Perhaps I'm miisreading something but that's what I got out of it.