Hi Nancy,
If I am not wrong you are developing the proxies without PI. The SOAMANAGER configuration as far as i know you need to configure in each environment without transport order.
Does the virtual end point contain the metadata for the service?
The virtual end point contains where goes to connect and how to do it.
Should I include the virtual end point manually in the request that contains the newly created proxy object?
In the ABAP proxy development you need to set the virtual port. I dont understand right this question
Should I follow any particular order to transport these 2 requests?
You can have in the same request order the proxy deleted and the new one.
Hope this helps.
Regards.