I'm almost certain that ClassicWB has ToolsDaemon installed as it's needed by ToolsPrefs (the extra menu).
In my ClassicWB 3.9 and in my ClassicWB Full it's installed just fine, and I also installed ToolsManager as well to have the nice dock.
Just check out the ToolsDaemon tooltypes from SYS:WBstartup folder and report back.
Mine are like this: