After a lot of digging around, I found the installation is not complete after the exe is run for 32bit environment , thanks to nitman's comment there are couple of steps that need to be run manually, which ideally should have been taken care by the exe itself
To deploy and activate the Batch Site Manager feature
1. At the command prompt, run stsadm.exe -o addsolution -filename "C:\ProgramFiles\Microsoft\SPAdministrationToolkit\BatchSiteManagerSolution\BatchSiteManager.wsp" to add the solution file to the farm solution store.
2. Run stsadm.exe -o deploysolution -name BatchSiteManager.wsp -immediate -allowgacdeployment to deploy the solution to the farm.
3. Go to Central Admin -> Operations -> Solution Management, confirm batchsitemanager.wsp status is deployed.
4. Run stsadm -o activatefeature -name BatchSiteManagerLinks to activate the feature.
To deploy and activate the Permission Reporting Tool feature
1. At the command prompt, run stsadm.exe -o addsolution -filename "C:\Program Files\Microsoft\SPAdministrationToolkit\PermissionReportingSolution\PermissionReporting.wsp" to add the solution file to the farm solution store.
2. Run stsadm.exe -o deploysolution -name PermissionReporting.wsp -immediate -allowgacdeployment to deploy the solution to the farm.
3. Go to Central Admin -> Operations -> Solution Management, confirm permissionreporting.wsp status is deployed.
4. Run stsadm -o activatefeature -name PermissionReporting to activate the feature.