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Thanks for reporting this issue.
It took a while, but I could eventually reproduce the issue. What happens is that OS X notifies Remote Buddy that Bluetooth's power state has changed. But when Remote Buddy then asks OS X what the current power state is (Bluetooth turned on or off), the information OS X returns is not always up to date, leading to what you observe.
The next release of Remote Buddy (1.21, scheduled for release this month) will now check the power state once per second for 60 seconds whenever it was notified about a Bluetooth power state change - which should address your problem.
Best regards,
Felix Schwarz