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iopl() is a system call required to gain access to privileged resources.
It is unclear whether the user has attempted an install from the Linuxcnc ISO or from a vanilla Debian install with a self built kernel or via package manager. Neither is it clear whether this is a RIP install of Linuxcnc or via a package.
If the OP can clarify these items and if self installed give a source for the instructions or elaborate on the process this would be great.

Blindly giving advice such as "reinstall" or redo this or that is the advice that is very common to the "Windows Ecosystem". As ethical Linux users it is far better to establish what the actual issue is and then make recommendations.
Even if one does suspect a corruption of the installation media it would be of great value to suggest, and advise the user how to, check that the ISO is a good download.
Tommy's advice regarding rebooting is a good suggestion regarding a previously "hung" Linuxcnc session.

So once we establish the user's method of install we can hopefully forment a solution.

try a mode change: mdi to manual back to mdi.
It forces the vars to be saved to file.

This mainline build also works pretty well, but will first do some more testing. In chromium/firefox the acceleration doesn't work, but 1080p works fine though. I'll upload an image/kernel if someone is interested.

 

When I configure a key as in hal Pin with 0, they are effectively created as hal pins, but when checking by running linuxcnc when pressing the keys related to those hal pins they do not change state, which would indicate to me that they are not connected. When testing from Arduino through the serial monitor, pressing any key shows that it is activated.

You are not the only one. I am using qtpyvcp and I am working on a workaround that will comment out the preceeding T lines and replace it with some special chars like (xx T1 M6) when RFH issued and save. And when a run command issued, it would remove and save. I am not sure how possible this is but I have some similar tricks in python before on qtpyvcp.