You can determine if this is the issue in your project by viewing the Contents window. Both map layers should be listed under one Map object with only one set of axes. It should look something like this:
If your map instead looks similar to the image below, then the layers are not spatially related to one another. This is why your maps don't seem to be showing up in the correct location relative to one another. To fix this, you can drag and drop the individual maps around in the plot window wherever you like. To have the layers be spatially related so that they line up relative to each other, they need to be in the same Map.
To combine the maps:
- Click on the first Map in the Contents window.
- Hold the CTRL key on your keyboard and and click on the second Map in the Contents window.
- Click Map Tools | Map Tools | Overlay Maps.
If the layers are all under the same map object (like first image), ensure the layers and the maps have coordinate systems defined for them. If the layers are in different coordinate systems, be sure to select each layer and set the appropriate coordinate system for the file that created the layer. If that does not help, please email the SRF file that shows the problem to email@example.com and indicate which layer in the map is not in the expected location.
Updated August 2020