That's a strange one. My experience is with OpenLDAP, not 389DS. Are you using SSL? I've seen things like this happen when a client can't negotiate a connection to one server and keeps trying rather than failing over to the back-up server. Have you looked at the logs on both the client and server side to see if this is happening? If you do a "ldapsearch -x" from the client, are you able to enumerate the LDAP directory?
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