10054 is not really a timeout - rather it means that the connection was closed. It's possible that this is caused because the superagent is busy at the time of the replication. If the superagent is not running MA4 patch 3, please try upgrading to this version - the relevant section of the Patch 3 release notes is:
"12. Issue: When a SuperAgent repository had more than five systems waiting to connect for download, subsequent
system connections were rejected causing the associated download to fail. (Reference: 471505)
Resolution: SuperAgent repositories now support up to 200 systems waiting to connect for download."