PCs not showing in Collection/Queries Config Manager 2012 R2 - Direct Rule

Hello,
I have been creating some collections and queries using a direct rule or manual entry of the device and the PC is not showing in the collection.
Example: Created collection for a .NET 4.5.2 install that I rolled out. Manually added the devices that need the application and of the 40 PCs 2 or 3 will not appear in the collection, thus they are not getting the software push. The PCs
that are not showing up are pinging able and I can RDP into them just fine. Config Manager shows they have the Client, are active and getting policy requests.
I thought maybe it there was an issue with the collection I was creating but I tried adding the same PCs to other collections and they do not appear in those collections either.
I did a manual query as well with the same results, the same PCs I try to add to the collections are not showing in my query even though they are hard coded in.
Thanks
Rich

I deleted the collection for our "Insurance Department" which the suspect PCs were in. I no longer needed the Insurance collection so I deleted that just to see if that was limiting the .NET collection. Now those PCs are showing in
the ".NET 4.5.2" collection.
That is good and everything but going forward I will need to have a collection for the "Insurance Department" that will be based on a query that looks for our Insurance Application in Installed Applications64. How can I prevent this new collection
from limiting any PC in that collection from being put into other Software Install collections?
Thanks for the help thus far.

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PCs not showing in Collection/Queries Config Manager 2012 R2 - Direct Rule

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