That looks like a condor_schedd parameter, so you should just be able to add the line
MAX_JOBS_PER_SUBMISSION = 100000
to any config file on the host running your condor_schedd process. Then run condor_reconfig to have the change take effect. The default location for the configuration files on linux systems is under /etc/condor/config.d.
Running
ÂÂÂ condor_status -schedd -f "%s\n" Machine
should help you determine what hosts your condor_schedd is running on if you aren't sure. If you have multiple schedulers on multiple hosts, you'd have to make the change and reconfigure on all of the hosts if you want this applied to all schedulers in your pool.
Hope that helps. Cheers.