Brief summary of bug

running a NEON site in AD mode with the run_neon command fails after the base case is created.

./run_neon --neon-sites TOOL --run-type ad

The base case is created and build correctly. But the following error message Error message after the base case builds and the SITE.ad case is created is below:

...
Check case OK
submit_jobs case.run
ERROR: Do not know about batch job case.run

This is easily addressed by running ./case_setup in the AD case, but it's not really working as designed.

General bug information

CTSM version you are using: [output of git describe]
ctsm5.2.023

Does this bug cause significantly incorrect results in the model's science? [Yes / No]
No

Configurations affected: [Fill this in if known.]
run_neon cases. I'll try with postAD and running transient cases from postAD options too & update this issue.

Maybe this is something that can be addressed by #2671 or #2406? is this something you're seeing in your run_tower testing, @TeaganKing?

I confirmed the same is NOT true with a transient case out of the box.
./run_neon --neon-sites BART, this transient case runs as intended.