When your two options are "work together and both parties make money" or "don't work together and no one makes anything", it doesn't matter what system you're talking about. No one benefits by blocking this title from being on any/both service(s).
There's also very little (if any) evidence of overlap for consumers when it comes to Virutal Console vs Live Arcade, so there's no reason why they couldn't agree to work together when it comes to Rare games.
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When your two options are "work together and both parties make money" or "don't work together and no one makes anything", it doesn't matter what system you're talking about. No one benefits by blocking this title from being on any/both service(s).
There's also very little (if any) evidence of overlap for consumers when it comes to Virutal Console vs Live Arcade, so there's no reason why they couldn't agree to work together when it comes to Rare games.