Debugging multi-agent systems, which are concurrent, distributed, and consist of complex components, is difficult, yet crucial. In earlier work we have proposed mechanisms whereby protocol specifications available from the design process can be used for monitoring the execution of the multi-agent system they describe. Protocol specifications can be used at run-time for reporting any discrepancies in interactions compared to that which was specified. In this paper we describe and categorise a range of bugs found in actual multi-agent systems developed by students in an Agent Oriented Programming and Design class. We then indicate how these bugs manifest to the debugging agent and what information it is able to provide to the user to assist in locating and diagnosing the problem. Categories and Subject Descriptors D.2.5 [Software Engineering]: Testing and Debugging