Hi,
no, this is all correct and expected like this. The Auto Import Extension will import the desired file and replace the previous table data with that, completely.
If columns were marked as hidden (like A, B, E, G, and H in your case), those columns will still be hidden, regardless of what their content was or is after the (re-)import.
The Table Row Order Extension comes into play only when the data is to be shown on the page (via the Shortcode). It does not store a modified order of the table.
Changing all of this is not possible, unfortunately, and there’s also a slight flaw in your manual process of leaving the “Edit” screen for the table open and then clicking save again. While you do get your desired structure, you also get the old data again. This is pretty much the same as if you had re-created that table data and structure after the (re-)import.
So, in summary, when using the Auto Import Extension, you kind of lose the ability to edit a table on the “Edit” screen (except for changing the settings below the table, and hiding rows/columns). That’s the entire idea behind that Extension, as it will “refresh” the table data periodically from a file (which might be coming from some other program/system).
Regards,
Tobias