To modify Elastix registration parameters, open Advanced section and click Show database folder button. It should show the registration preset database folder. You can edit ElastixParameterSetDatabase.xml to add new presets (name, description, etc. and a list of registration steps) and edit/add .txt files to edit registration steps.
If you upload a set of images to dropbox, onedrive, google drive, … and post the link here then I can have a quick look