I too am seeing this repeating of commands, albeit intermittently. In my case it seems related to IR interference. I am using the FLIRC with a Pi running OpenELEC and a low end 32" LCD TV and a SKY+ remote. I have noticed that the position of the FLIRC has an impact. I suspect this may be due to reflected IR from the LCD screen, I note the FLIRC doesn't seem to have an IR filter on its receiver to limit the IR noise given of by other things (such as LCD TVs). Moving the FLIRC tends to stop the behaviour for a while (hours).
Looking at the thread above I get the impression a firmware upgrade is coming, any dates?
Thanks Nigel