As long as you can run the SUU program, you should have no problem running the updates from a thumb drive.  Any update can be run that way as far as I know.
  I have a PowerEdge 2650 with the following configuration (see below). What are the steps I need to do, and what do I need to download in order to update to Dell OpenManage 5.2.1 and beyond?   I have the “OM 5.2.1 SUU” CD and tried to use that to update my server.  The Dell OpenManage component was a version earlier than 4.3 so the prerequisites check failed.  I went ahead and installed all the rest of the necessary firmware, bios, and drivers. I believe I need to update to OpenManage component 4.3 before installing the OpenManage component on the “OM 5.2.1 SUU” CD. However, I cannot find the OpenManage component 4.3 software!  Where is it?   Operating System  Microsoft Windows Server 2003, Standard Edition  Version 5.2 Service Pack 2 (Build 3790)  BIOS Information  Manufacturer Dell Computer Corporation  Version A21  Release Date 10/05/2006   Firmware Information  Baseboard Management Controller  Version 3.37   Firmware Information  Primary Backplane Version 1.01  Secondary backplane Version 1.01   Adaptec PERC 3/Di Controller 0 (AFA0) Firmware Version 2.8-1 (Bld 6098)   System Management  Server Administrator Version 1.6.0   Systems Management Software  Contains: Instrumentation Service 4.11.0  Storage Management Service 3.4.1  Update Service 1.7.0  Diagnostic Service 2.6.0  Sun JRE - OEM Installed Version 1.3.1  Secure Port Server 1.0.0  Core Service 1.6.0  Instrumentation Service Integration Layer 1.4.0  Storage Management Service Integration Layer 1.2.0  Server Administrator 1.6.0  Remote Access Integration Layer 1.6.0  Remote Access Controller Managed Node 3.0  Dell OpenManage 3.6.0 
How do I update Server Administrator on a PE2650?