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The main shortcomings I can think of:
- it's built primarily for my current conversion project (XYZW axis Bridgeport knee mill). I undid many of the things in QtAxis that made it a more generalized.
- it's built specifically for a 1920x1080 touchscreen in landscape
- I intentionally stripped out key shortcuts because I am integrating a physical control panel, and intend to change several more things for the same reason soon.
- No documentation

I was able to figure out where to add the GUI files and sim config files in the source tree, so I can submit a PR if desired. I'm still not sure if it's a more hassle for everyone to make it part of LinuxCNC right now vs. continuing development in my own repo until it's more mature.

The encoder data issue may be electrical noise related.

I guess it could be a Mesa modbus bug but its a bit strange
that it seems to affect physically nearby signals.

How is the RS-485 interface connected to the 7I80?

Also on baud rate issue, the eletec I/O module will not run at 115200
baud reliably, it crashes and can only be recovered by a power cycle
of the I/O module. I suspect a stack error at 115200 baud  interrupt
rates in the I/O module. Running at 115200 baud the card crashes in
a few hours, at 9600 baud its been running a week so far.

use an internet search engine such as Google Chrome Type:
linuxcnc : m6 remap for atc
you get few answers to your questions.