The 2 products are fully interoperable, so this should work. However, you may need to change how the Instant clones are triggered to make it possible to automatically put them in a VM group.
This documentation section touches on how this should be done:
This blog covers the new cmdlets used to address VM groups:
This blog covers using PowerCLI to work with Instant Clones:
Hope that helps.
So what you are saying is the only way to do this successfully with a VSAN stretched cluster is to use an external script, correct? There is no native functionality that will allow the instant clones to automatically get placed in a certain VM Group?