I don’t understand what you did.
If you have only areas / boundaries that will be placed over your map and markers to display, then you need 2 trackers.
One tracker for the boundaries with 3 fields (minimum); name (text any label), zone (file for the json) and a checkbox (display yes or no).
Another tracker for the markers with 3 fields (minimum); name (text any label), icon (I used the icon field but I think it should also work with files) and a checkbox (display yes or no).
Then in the plugin map you use the checkboxes flag to display or not.
Be aware that you need to re-index you Tiki a lot (I do for each change )