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I have the same problem. I am working with Oracle 10g 10.2.01 and MySql 5.0.21. I have downloaded Omwb for Mysql5 beta and connector 3.1.14.
I have extract the Mysql connector and zipped the com path (/src/com) under the drivers directory of omwb.
I am connected successfull to my MySql DB from mysql-client.
First problem: Omwb don't recognize Mysql5 plug-in. I have tried also delting Mysql3 and Mysql4 plugin form directory, but also don't recognize the Mysql5 plugin.
Second Problem: using MySql4 give the same problem of user539970:
"OMWB error - Database not found: Make sure hostname, port and server are correctly specified.for the version of MySQL you wish to connect to."