What version do you have? The latest version is 3.1 I think.
Do not use the Install Shield updater - Omron have a much, much better one now.
Go to Start Omron - CX-One - CX-One Auto Update. It may update the updater first and the next time you go there it will show you the updates available, click on install and you do not have to do a thing.
It is the BEST industrial automation updater I have seen - and I can assure you I have a few. Only one up there with it is the Citect Driver Update module - it works as well as the CX-One updater.
If you have an older version of CX-One they were always a bit of a pain to update but the new one is great.