It is known bug in ArcGIS server 10.1 SP1
Please refer : NIM086160 Unable to make a user connection to ArcGIS Server from ArcGIS Desktop with a user from 10.0 SQL user or role store.
I faced the same issue and waiting for ESRI-ArcGIS Server -Patch to resolve
Have been able to duplicate this with two server setups. Wondering if anyone has encountered this problem and found a work around?ArcGIS Server 10.1 sp1, ArcGIS Desktop 10.1 sp1Using a WebAdapter, or directly to the GIS serverConfiguration SettingsUser Store: 10.0 SQL Server (This is a aspnet user store in SQL)Role Store: 10.0 SQL Server Authentication Tier GIS Server Authentication Mode: ArcGIS Tokens If I connect to the rest and log in with a user I see the folders/services that user has permissions to see. If I make an ArcCatatlog connection with that user there is nothing, not even public folders or services available.
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