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Backing up Project Server database can be easier by using a procedure that includes all the database that you want to include. I drop thet backup files on a share drive that is isolated from the server
--
-- Be sure the Share has write permissions for the SQL Process

USE MASTER
BACKUP DATABASE ProjectServer_Archive TO DISK = '\\SERVER\BackupSQL\ProjectServer_Archive.BAK' WITH FORMAT
GO

BACKUP DATABASE ProjectServer_Draft TO DISK = '\\SERVER\BackupSQL\ProjectServer_Draft.BAK' WITH FORMAT
GO
BACKUP DATABASE ProjectServer_Published TO DISK = '\\SERVER\BackupSQL\ProjectServer_Published.BAK' WITH FORMAT
GO
BACKUP DATABASE ProjectServer_Reporting TO DISK = '\\SERVER\BackupSQL\ProjectServer_Reporting.BAK' WITH FORMAT
GO

BACKUP DATABASE PWA_Content TO DISK = '\\SERVER\BackupSQL\PWA_Content.BAK' WITH FORMAT
GO

BACKUP DATABASE SharePoint_Config TO DISK = '\\SERVER\BackupSQL\SharePoint_Config.BAK' WITH FORMAT
GO
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For more information on Backup database in T-SQL
http://msdn.microsoft.com/en-us/library/ms186865(v=sql.105).aspx

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