If the templates are missing it could be related to SharePoint features that are not active. Verify the Site Collections Features and Site Features are the same in the source and target.
You could also try to map the subsites to different site templates on the target:
a) Check the Map Child Site Template box.
b) Click the […] button to display the Map Web Templates dialog.
c) Select the row containing the Source Web Template you want to map, right-click, and choose the new corresponding Target Web Template.
If not all the subsite templates show up in the mapping dropdown you could try adding a mapping entry in the mapping table using a PowerShell script generated from the job configuration.
After configuring and generating the PowerShell Script add the following xml entry (Search the location per 'XmlableEntry' tag)
<div style="box-sizing:border-box;" segoe="" ui",="" system-ui,="" "apple="" color="" emoji",="" "segoe="" ui="" sans-serif;="" font-size:="" 14px;"=""><XmlableEntry>
<Key>template name at source</Key>
<Value>template name at target</Value>
</XmlableEntry>
Save the script and run it.
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