Thanks for the response Bas

I tried running grep -c bone_capemgr.uboot_capemgr_enabled=1 /proc/cmdline 
as you suggested, however this returned 0. 
It might be worth mentioning that I have a second beaglebone black board 
and, while none of them will run machinekit, the second one does not get 
the same error message as the first even when I use the exact same image. 
it  instead gives the following message:

MACHINEKIT - 0.1
Machine configuration directory is 
'/home/machinekit/machinekit/configs/ARM.BeagleBone.Probotix'
Machine configuration file is 'Comet_Metric.ini'
Starting Machinekit...
rtapi_msgd command:  /usr/libexec/linuxcnc/rtapi_msgd --instance=0 
--rtmsglevel=1 --usrmsglevel=1 --debug=1 --halsize=524288
rtapi_app command:  /usr/libexec/linuxcnc/rtapi_app_rt-preempt --instance=0 
--debug=1
io started
Unrecognized line skipped: POC     FMS     LEN     DIAM    COMMENT
halcmd loadusr io started
Comet.hal:20: insmod failed, returned -1:
rtapi_app_main(hal_pru_generic): -1 Operation not permitted

Shutting down and cleaning up Machinekit...
Cleanup done
Machinekit terminated with an error.  For simple cases more information
can be found in the following files:
    /home/machinekit/linuxcnc_debug.txt
    /home/machinekit/linuxcnc_print.txt

For other cases get more meaningfull information by restarting after
    export DEBUG=5

and look at the output of:
    /var/log/linuxcnc.log
    dmesg

When looking for errors, specifically look for libraries that fail to load
by looking for lines with 'insmod failed' as per example below.

insmod failed, returned -1:
do_load_cmd: dlopen: nonexistant-component.so: cannot open shared object 
file:
No such file or directory

For getting help, please have a look here: 
www.machinekit.io/docs/getting-help/


does this mean there is something wrong with one of the boards?

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