Hi raghu0463,
User permissions, app context, search modes (Fast vs Smart vs Verbose), knowledge objects permission, roles, even you mentioned it - but make really sure you are searching over the exact same time range (use a fixed range over yesterday for example), don't run real-time searches and compare results, late arriving events, time not in sync in your environment, wrong timestamp recognition ... the list is really long and did I mention time zones?
Hope this helps in some way ...
cheers, MuS
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