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I am not sure if I understand exactly what you would like to accomplish.
What I can say is that there is a HTML widget that will allow you to add as much your own pure HTML code in and have it displayed on your jotform. I am however not sure if that is what you mean.
To get this widget on your form you should look under Form Tools (on the left) and then select Text widget. It will allow you to edit data with the toolbar and to edit HTML directly.
Do let us know if this is what you wanted and if this is not what you meant.
My import of any Adobe FormsCentral form resulted with many text boxes. There is an area that has 3 text boxes on the same horizontal row. Do I have the ability to edit the positioning of these text boxes by changing the HTML directly?
If you want to change the HTML directly you will have to download a copy of the form's full source code then edit it.
Keep in mind however that these changes will not be propagate to you form in jotform account and vice-versa, you will have to manually effect the changes.