I'm unfamiliar with Kandji specifically. I know if you use SM for profile enrollment, you can just deploy the agent from Systems Manager > Manage > Apps and install it that way.
Assuming you don't use SM for profile enrollment, a workaround COULD be installing an older version (< v3.5+) and do an upgrade afterwards. One consideration doing it this way is that v3.1.4 and older require Rosetta 2 to be installed for Apple Silicon.
Tough position, I hope it gets worked out.
As a note: if you're already using another MDM service, it might be time to fully swap away from Systems Manager.