Lessons learnt:
- Unfortunately, one of the main UNX file got corrupted
- Have to restore CMS Repository database.
NEVER DO THE BO 4.1 SP1 Client -> Change/Repair from Control Panel without a proper backup in place.
- On server tried to Run On Server -> Control Panel -> Change/Repair -> Programs -> select BO 4.1 SP1 Server-> Right click -> unInstall/Change-> Select Repair, OK. And this fixed the issue of SIA reboot.
Still my primary issue WebI Richclient not opening persists on the Server. If anyone has similar issue with BO 4.1 SP5 Upgrade share your experience.