Hello lynnew82,
As of version 5.0, Esri Maps for IBM Cognos no longer uses Flash player, so that will not be the cause of the issue.
It might be a good idea to double-check that the url for your ArcGIS Online organization or Portal for ArcGIS is entered correctly in settings.js. I noticed that if the arcgisurl is set incorrectly (for example, with /home at the end of the Portal url), then the configuration page may not load.
Another thing to try is to make sure that you can navigate to the arcgisurl directly in your browser. If your browser shows a security warning when navigating to the url, you will have to confirm the security exception. Once the url is marked as safe/trusted, Esri Maps for IBM Cognos should not have any problems accessing the arcgis url in order to load the map configuration page.