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Unfortunately I don't think this is possible given how the M&M data files represents stuff internally. "Stacks With" is already a bit of an advanced extra - the assumption is that you know what you're doing and have GM's permission when you use it.
For example, there's nothing stopping you from buying 1 rank of a Variable power then 10 ranks of Burrowing, and make Burrowing "stack with" Variable to get a free 10 ranks. Some of those combinations may be valid, some not - Hero Lab can't easily validate them, as it's up to the GM to allow them on a case by case basis.
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