New Web Application not creating correctly

I'm having an odd occurrence happen about 50% of the time right now when creating new web applications during my migration from SP2010 to SP2013.
During creating a web application in Central Admin, I can get through the first setup page, then get to the "This shouldn't take long" page and will sit there for 30+ minutes. I end up closing the window and will see that the Web application is there in
Central admin, and sometimes the DB will be created, other times not, not a big issue since I'm mounting a sp2010 database to this web application.
What I do notice is that either a IIS site will either not be created at all, or it will be created, but the Virtual Folder is empty. When trying to delete the Web Application through central admin or PowerShell it will hang for hours until the next day
when it's finally deleted. During this time I am not able to create any other web applications. It's usually at this time that I can successfully create a new web applications but even that is unreliable.
Has anyone ran into this issue or can suggest any workarounds to get this working? I'm wondering if copying the contents of another web application's virtual directory to the failed web application's virtual directory will be a workaround. I still need to
verify if creating a web application through PowerShell gives me the same headache but at the moment I'm currently waiting for a web application to delete.

Finally got this resolved after an 8 hour call with Microsoft. After finally getting the Microsoft SharePoint Foundation Web Application service to restart (took 4 hours) We found that changing the Shutdown time in the Web Application Pool for the Central
Admin pool to 400 allowed for the Web Application to complete successfully.
I'm still confused to why everything is taking so long now to complete so i'll have to look into that next.
Folks, this is a minor problem that seems to be creeping up more and more. I personally have performed over 8 installs in various environments. I have seen this issue in 6 out of the 8 environments I have created. All servers I have tried a variation of
software. In MOST of my tests, this seems to be a problem. Not sure why they decide to recycle the App Pool just before they perform an "Virtual Directory Copy." Here are the results of my tests. I was very methodical in my testing and made sure these were
clean downloads every time. As you will see, I tried variations of hardware increases, physical to virtual, database versions and patch levels...etc.
Test #
Hardware
Software
Server Type
Install Type
Problems Creating Web Apps
Work Around
Resolution
1
HP   Proliant DL360 G6, 16gb memory, 146gb - C, 146gb D (Pagefile), 146gb E, 2   Quad Procs
Windows   2008R2 (All Patches), SQL 2012 w/SP1, SharePoint 2013 Server
Physical
Clean Install and downloads
Yes
Copy Contents of Central Admin   Virtual Directory to new Web Application
Increase Shutdown time to 400
2
Host Server = Dell R900 256gb Mem, 146gb   C, 300gb D (Pagefile), 2tb E, 4 Quad Procs; Virtual Guest = 
100gb - C, 2 Logical Procs, 8gb memory
Windows 2008R2 (All Patches), SQL 2012,   SharePoint 2013 Server
Virtual
Clean Install and downloads
Yes
Copy   Contents of Central Admin Virtual Directory to new Web Application
Increase   Shutdown time to 400
3
Host   Server = Dell R900 256gb Mem, 146gb C, 300gb D (Pagefile), 2tb E, 4 Quad   Procs; Virtual Guest = 
100gb - C, 2   Logical Procs, 8gb memory
Windows   2008R2 (All Patches), SQL 2012 w/SP1, SharePoint 2013 Server
Virtual
Clean   Install and downloads
No
4
Host Server = Dell R900 256gb Mem, 146gb   C, 300gb D (Pagefile), 2tb E, 4 Quad Procs; Virtual Guest = 
100gb - C, 2 Logical Procs, 8gb memory
Windows 2008R2 (All Patches), SQL 2012   w/SP1, SharePoint 2013 Server
Virtual
Clean Install and downloads
Yes
Copy   Contents of Central Admin Virtual Directory to new Web Application
Increase   Shutdown time to 400
5
Host   Server = Dell R900 256gb Mem, 146gb C, 300gb D (Pagefile), 2tb E, 4 Quad   Procs; Virtual Guest = 
100gb - C, 4   Logical Procs, 16gb memory
Windows   2008R2 (All Patches), SQL 2008 R2 w/SP1, SharePoint 2013 Server
Virtual
Clean   Install and downloads
Yes
Copy Contents of Central Admin   Virtual Directory to new Web Application
Increase Shutdown time to 400
6
Host Server = Dell R900 256gb Mem, 146gb   C, 300gb D (Pagefile), 2tb E, 4 Quad Procs; Virtual Guest = 
100gb - C, 4 Logical Procs, 16gb memory
Windows 2008R2 (All Patches), SQL 2008 R2   w/SP2, SharePoint 2013 Server
Virtual
Clean Install and downloads
No
7
Host   Server = Dell R900 256gb Mem, 146gb C, 300gb D (Pagefile), 2tb E, 4 Quad   Procs; Virtual Guest = 
100gb - C, 4   Logical Procs, 16gb memory
Windows   2008R2 (All Patches), SQL 2008 R2 w/SP2, SharePoint 2013 Server
Virtual
Clean   Install and downloads
Yes
Copy Contents of Central Admin   Virtual Directory to new Web Application
Increase Shutdown time to 400
8
Host   Server = Dell R900 256gb Mem, 146gb C, 300gb D (Pagefile), 2tb E, 4 Quad   Procs; Virtual Guest = 
100gb - C, 4   Logical Procs, 32gb memory
Windows   2008R2 (All Patches), SQL 2008 R2 w/SP2, SharePoint 2013 Server
Virtual
Clean   Install and downloads
Yes
Copy   Contents of Central Admin Virtual Directory to new Web Application
Increase   Shutdown time to 400

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