Cannot connect to RemoteApp (VDI mode) but can connect to full VDI desktop

Title says it all. I have a multiple server RDS farm. Gateway, license and broker are concentrated on one server. Several session hosts and they all work fine. They host full desktop sessions.
The problem started when we started to move to VDI (pooled managed). At first during testing everything was working in fine. We had started publishing our apps and it was working in our lab. We then tested for scale and deployment and everything was fine.
When we started to roll out, at some point during creating of the VDI vm's (we were testing with 5 and then deployed 50), it got interrupted and failed. We recreated all desktops and that finished OK.
Problem is: no one can connect to an app.
If I remove the published apps, everyone can get a VDI desktop, but as soon as I try to publish an app, then nothing. No errors generated... nothing. It looks like it is connecting but then nothing. The Remotepp window just silently closes.
I have:
1. Rebuilt then entire RD Host from bare metal
2. Removed and re-added the gateway and connection broker services on the main server
3. Rebuilt the template from scratch and republished
I get the exact same behavior. Users can get full managed VDI desktops... cannot get RemoteApps.
Unfortunately, I cannot destroy the entire RDS infrastructure and rebuild because it is a business critical part of our infrastructure.
I have combed through the registries looking for orphaned entries, etc. and nothing. I saw a few blog posts related to the local DB for the connection broker and have not tried digging into that. I DO NOT have connection broker running in HA.

Hi Jason,
Thanks for your comment.
First of all sorry for late response.
There are many issue which can be caused by WMI to deny access to retrieve connection list. You can try few things which is quoted from below thread.
1. Check if the "TS Web Access Computers" security group on the RDSH server has incorrect permissions in DCOM and/or WMI:
   For checking DCOM security settings:
   1. Start the Component Services MMC snapin
   2. Navigate to Component Services -> Computers -> My Computer
   3. Right-click on My Computer and select properties
   4. Go to the COM Security tab
   5. Under Access Permissions, click the Edit Limits button
   6. Ensure that TS Web Access Computers is in the list, with all of the permissions set to “allow”.
   7. Under Launch and Activation Permissions, click the Edit Limits button
   8. Ensure that TS Web Access Computers is in the list, with all of the permissions set to “allow”.
   For checking WMI security settings:
   1. Start the WMI Control MMC snapin
   2. Right-click the WMI Control node and select properties
   3. Go to the Security tab
   4. Navigate to Root->CIMV2->TerminalServices
   5. With TerminalServices selected, click the Security button
   6. Ensure that TS Web Access Computers is in the list with Execute Methods, Enable Account, and Remote Enable set to "allow"
2.  Verify the RD Session Host server's firewall allows WMI calls.
3. Verify that the RD Connection Broker hasn't lost its trust relationship with the domain.
4. See if non-RDS related WMI calls can be successfully made to the RDSH server. This can help differentiate between a general WMI issue and an issue calling the RDS WMI provider.
More information.
RemoteApp Source not working from RDWeb
http://social.technet.microsoft.com/Forums/windowsserver/en-US/173d4546-e12f-47c1-ac66-8b4f69826892/remoteapp-source-not-working-from-rdweb?forum=winserverTS
Hope it helps! 
Thanks.
Dharmesh Solanki

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