I am pretty sure that following a quick hack to get around a projects permissions with using icacls <path_to_site> /grant "IIS APPPOOL\<app_pool_name>"(CI)(OI)(M)
I ran
icacls C:\inetpub\wwwroot\mysite\ /grant "IIS APPPOOL\DEFAULTAPPPOOL":(CI)(OI)(M)
Now I cannot connect to sql server with windows authentication!
Yes, I was not thinking, but "whatever" now I want to revert this and NOT have this grant, so I was reading and reading.. and not having too much fun.
Repair did not work with sql server 2014.
I installed sql server 2012 and that worked.
No time to troubleshoot it any longer.