What do you do with that newly created new file? 

On how to complete Form 1040X, step 3 is to save the original return in a different or a new file name. Then continue to work on the originally filed return. When all is done and 1040X is created in the original filed return, then proceed with e-file. 

What do you do with that newly created new file?  Can we work on and e-file 1040X from this newly created file instead of the originally filed return?

Any help is greatly appreciated!

How to complete Form 1040X

1. Open the client’s original return.
2. From the File menu, select Save as.
3. Save the return using a different name. For example, SmithCopy20.20I
4. Go to Homebase. 
5. Open the originally filed return (not the copy you just created). Use the File name column to tell them apart.