The only type of connection problems to the library we have experienced is when it becomes locked by a host (usually windows host in our experience) and is unavailable to all others.
I've experienced similar problems on our windows implementation of data protector. To solve we had to disable the removable storage service on the media agent and then remove and readd the library and drive.
Does the machine have any other scsi devices attached?
Have you tried other devices attached to the scsi card that controls the library?
have you tried using another machine as the media agent?
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