Cavedude's and the PEQ database are both compatable with each other, what seems to be the problem is that the last installer that was put out was for version 0.7.0 and since that release there have been a few DB changes that must be applied to the Database in order for it to work with the newest binaries.
Since Cavdedude releases his DB with the installer people forget, or do not realize, these changes still need to be applied to his database as well as PEQ in order for it to stay up to date. If your Editor it made to be used with all the lastest changes this is probably the problem.
I have answered a few questions similar to this recently and in most cases they seem to have to do with this SQL update.
Code:
ALTER TABLE spawnentry DROP spawn_limit;
ALTER TABLE spawngroup ADD spawn_limit tinyint(4) NOT NULL default '0';
ALTER TABLE altadv_vars ADD class_type int unsigned NOT NULL DEFAULT 0;
Hope this helps some.