I am seeing the exact same issue and I'm using version 3.86 of the script.
As a result of this issue, the top right suite bar links (Newsfeed, SkyDrive, Sites) are missing from the Portal web app. I went in to SQL Server and manually add the app pool account of the Portal to the SharePoint_Shell_Access role for the Profile and Social DBs - and this made the suite bar links appear for the Portal web app.
My environment is a single server farm.
I ran the script under a dedicated install account and have specified dedicated app pool accounts for farm admin, web app pool and service app pool.
Many thanks for this great script!
Bernado
As a result of this issue, the top right suite bar links (Newsfeed, SkyDrive, Sites) are missing from the Portal web app. I went in to SQL Server and manually add the app pool account of the Portal to the SharePoint_Shell_Access role for the Profile and Social DBs - and this made the suite bar links appear for the Portal web app.
My environment is a single server farm.
I ran the script under a dedicated install account and have specified dedicated app pool accounts for farm admin, web app pool and service app pool.
Many thanks for this great script!
Bernado