I'm running scans with the settings advised above. I should have results tomorrow. In the meantime, I'm watching 5 different 2008 r2 clients that are all upgraded to 12 1 ru5 that each appear to have the scan process hung up on small .dll files. By hung I mean the scan is on the same file for at least 20 mins. These are not compressed files, nor do they appear to be in the common_appdata path:
server a C:\Program Files (x86)\Common Files\microsoft shared\VC\amd64 msdia80.dll 894KB
server b (same file) C:\Program Files (x86)\Common Files\microsoft shared\VC\amd64 msdia80.dll 894KB
server c C:\Windows\SysWOW64 bitsprx4.dll 9KB
server d (same file) C:\Windows\SysWOW64 bitsprx4.dll 9KB
server e C:\Windows\inf mdmcpq.PNF 228KB
So this is a bit concerning, I will run a full scan report tomorrow to see how many machines completed their scans how many are stuck. This would definely indicate an issue with RU5 all 5 of these servers were running scans completing withing about an hour up until the upgrade over the Sat-Sun maintenance window.
Has there been any change to scan tuning with RU5? Maybe best app performance waits for complete idle before scanning now? I'm going to run some servers set to best scan performance to see if they hang up also.
Hopefully a new scan policy is all they need....