I have similar issue, with 1 service on HANA Studio (hdbxscontroller). After a System Copy we have this error:
# XSA Controller Log
# Version: v1.0.13 (built 2016-02-02 13:18:05, codeline REL, SAP SE)
[2016-04-06 07:57:40:926]-[Controller.Admin]-[error]-[.]-[.]: Failed to start controller
com.sap.xs2rt.controller.ControllerExceptions$ControllerStartUpException: Unable to initialize the ConfigStore.
at com.sap.xs2rt.controller.impl.ControllerImpl.startUp(ControllerImpl.java:778)
at com.sap.xs2rt.controller.impl.ControllerConsole.main(ControllerConsole.java:628)
Caused by: com.sap.xs2rt.controller.configstore.ConfigException: javax.persistence.PersistenceException: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.6.0.v20150309-bf26070): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: com.sap.db.jdbc.exceptions.jdbc40.SQLInvalidAuthorizationSpecException: [10]: authentication failed
Error Code: 10
at com.sap.xs2rt.controller.impl.configstore.repository.ConfigStoreRepositoryImpl.initForStartupAccess(ConfigStoreRepositoryImpl.java:83)
at com.sap.xs2rt.controller.impl.ControllerImpl.startUp(ControllerImpl.java:772)
... 1 more
Caused by: javax.persistence.PersistenceException: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.6.0.v20150309-bf26070): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: com.sap.db.jdbc.exceptions.jdbc40.SQLInvalidAuthorizationSpecException: [10]: authentication failed
Error Code: 10
at org.eclipse.persistence.internal.jpa.EntityManagerSetupImpl.deploy(EntityManagerSetupImpl.java:812)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryDelegate.getAbstractSession(EntityManagerFactoryDelegate.java:205)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryDelegate.createEntityManagerImpl(EntityManagerFactoryDelegate.java:305)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryImpl.createEntityManagerImpl(EntityManagerFactoryImpl.java:337)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryImpl.createEntityManager(EntityManagerFactoryImpl.java:303)
at com.sap.xs2rt.controller.impl.configstore.repository.ConfigStoreRepositoryImpl.createManager(ConfigStoreRepositoryImpl.java:287)
at com.sap.xs2rt.controller.impl.configstore.repository.ConfigStoreRepositoryImpl.initForStartupAccess(ConfigStoreRepositoryImpl.java:68)
... 2 more
Caused by: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.6.0.v20150309-bf26070): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: com.sap.db.jdbc.exceptions.jdbc40.SQLInvalidAuthorizationSpecException: [10]: authentication failed
Error Code: 10
at org.eclipse.persistence.exceptions.DatabaseException.sqlException(DatabaseException.java:331)
at org.eclipse.persistence.exceptions.DatabaseException.sqlException(DatabaseException.java:326)
at org.eclipse.persistence.sessions.DefaultConnector.connect(DefaultConnector.java:138)
at org.eclipse.persistence.sessions.DatasourceLogin.connectToDatasource(DatasourceLogin.java:162)
at org.eclipse.persistence.internal.sessions.DatabaseSessionImpl.setOrDetectDatasource(DatabaseSessionImpl.java:204)
at org.eclipse.persistence.internal.sessions.DatabaseSessionImpl.loginAndDetectDatasource(DatabaseSessionImpl.java:746)
at org.eclipse.persistence.internal.jpa.EntityManagerFactoryProvider.login(EntityManagerFactoryProvider.java:253)
at org.eclipse.persistence.internal.jpa.EntityManagerSetupImpl.deploy(EntityManagerSetupImpl.java:728)
... 8 more
Caused by: com.sap.db.jdbc.exceptions.jdbc40.SQLInvalidAuthorizationSpecException: [10]: authentication failed
at com.sap.db.jdbc.exceptions.jdbc40.SQLInvalidAuthorizationSpecException.createException(SQLInvalidAuthorizationSpecException.java:40)
at com.sap.db.jdbc.exceptions.SQLExceptionSapDB.createException(SQLExceptionSapDB.java:301)
at com.sap.db.jdbc.exceptions.SQLExceptionSapDB.generateDatabaseException(SQLExceptionSapDB.java:185)
at com.sap.db.jdbc.packet.ReplyPacket.buildExceptionChain(ReplyPacket.java:102)
at com.sap.db.jdbc.ConnectionSapDB.execute(ConnectionSapDB.java:1031)
at com.sap.db.jdbc.ConnectionSapDB.execute(ConnectionSapDB.java:820)
at com.sap.db.util.security.AbstractAuthenticationManager.connect(AbstractAuthenticationManager.java:43)
at com.sap.db.jdbc.ConnectionSapDB.openSession(ConnectionSapDB.java:568)
at com.sap.db.jdbc.ConnectionSapDB.doConnect(ConnectionSapDB.java:421)
at com.sap.db.jdbc.ConnectionSapDB.<init>(ConnectionSapDB.java:173)
at com.sap.db.jdbc.ConnectionSapDBFinalize.<init>(ConnectionSapDBFinalize.java:13)
at com.sap.db.jdbc.Driver.connect(Driver.java:303)
at java.sql.DriverManager.getConnection(DriverManager.java:664)
at java.sql.DriverManager.getConnection(DriverManager.java:208)
at org.eclipse.persistence.sessions.DefaultConnector.connect(DefaultConnector.java:98)
... 13 more