I upgraded our CF9 to CF10, and it is mostly working just fine, and my main application migrated perfectly, so thank you for that, but there are some issues. I'm using Windows 2008 x64 and CF Standard.
So from the first bullet point above, I wonder if the reason my application migrated so smoothly is at least partly because it's running in CF9 space?
Make sure your Web server using CF10 instead of CF9.
If you use IIS, then you should look the Handler Mappings.
You're right, the handler mappings are wrong in some spots. In some cases there are two entries for .cfm where one goes to cf9 and the other cf10. The folder I was working out of only has one mapping for .cfm, but it maps to cf9. What is the best approach for fixing this?
If not too many folders, I would do manually.
There is, however, a command line to re-mapping all in once.
Read these, you might find the answer.