Over an hour delay between backing up servers

It could be that something is holding up either the resource or the tape drive/library.

How can I check?

The other drive from 1:57am to 3:56am which was during the 60 minute delay on drive 2, was taking a shadow copy (263gb worth) backup from the app\file server.

You should look at the joblogs of both jobs, the one before and the one after, and check the start and stop times of each phase of the job, like backup, verify, etc. for each of the resources in the jobs and then do some detective work to find out where/what is the delay.

I've looked back on older tapes it looks like they have always had 30+ min delays between backing up the last non media server and the media server.

I moved the media server to backup first, the job kicks off at 11:50pm but the backup didn't start till 1:16am!

The server right after the media server, started straight after the media server finished backing up.

Are there any pre-commands configured for the BE media server backup job ? If running any AV, set it to exclude from scanning the BE processes. And are there any relevant events logged in the event viewer ?

Lastly, enable debugging on the BE media server and this should give a clue as to why the backup start is delayed on the BE media server.

No pre-commands that I can see.

AV is already set to exclude.

Logs look ok, I don't see anything that would cause the issue.

Can you point me to the doc on enabling debugging please? Is it SGMon as per the link below?

http://www.symantec.com/business/support/index?page=content&id=howto11932

Yes, this is fine. You can select the following options to debug ~

Job Engine, RAWS, Agent Browser

Backup Exec Server

Device & Media

Capture to File

Thanks, have I set it correctly because I don't see RAWS?

Yes, as RAWS is also known as Agent for Windows.