Yes, we only ship /usr/bin/perl copies of the scripts. If you're risky enough to be running a beta, you had better be able to change your own path to perl!
Only cp.cgi and ultimatebb.cgi need to be changed. There are other scripts (ubb_upgrade.cgi), but those do not need to be run during the 6.0->6.1 upgrade.
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Please also see our parent organization VNC Web Services if you're in the need of a new UBB.threads Install or Upgrade, Site/Server Migrations, or Security and Coding Services.