As you may know Microsoft recommends to clean the farm first before migrating to a new version of SharePoint. (Clean up an environment before an upgrade to SharePoint 2013)
For my migration story SharePoint 2007 to SharePoint 2010, please refer to "SharePoint 2007 to 2010 Upgrade" online project
Now, I m in the process of migration SharePoint 2010 to SharePoint 2013.
I recommend to start cleaning from top to bottom.
First, check unused web applications
Web analytics reports are really good help for that.
For my migration story SharePoint 2007 to SharePoint 2010, please refer to "SharePoint 2007 to 2010 Upgrade" online project
Now, I m in the process of migration SharePoint 2010 to SharePoint 2013.
I recommend to start cleaning from top to bottom.
First, check unused web applications
Web analytics reports are really good help for that.
It shows you: Total Number of Page Views, Total Number of Daily Unique Visitors.
Based on that information, it's fairly easy to find abandoned web applications.
So, next step is to stop the related application pool and notify users.
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