I have also noticed this that similar macros I have used would ignore skill priority and stance in the macro and use Bootshine or Dragon Kick regardless, not every time but I would hazard a guess at atleast 1/4 of the time using the macro.

I infact notice it often enough to stop using the macros completely until its fixed.

Are you an EU player perhaps? Maybe has something to do with the inherent latency connecting to the servers over in Canada, is the only thing I can think that may cause it.