I find it very, very questionable to speak of a "WR" for this, it is literally the bowser fight of the original SM64 with more than negligible changes to it. I mean imagine if there was a WR for every bowser fight in hacks when they are all pretty much equal to each other, it would be ridicolous, not to say silly.
But to actually name a time, I honestly need to admit that I don't know the best time for this bowser fight, the best I know is a 39.96 from ikori for the bowser fight in the original SM64, there might be a better time than that but 39.96 is pretty good already.
maybe he meant, this one here: https://www.speedrun.com/sm64sapphire/Bowser_in_the_Gloomy_Sea#Stage_RTA ? what the time for level+fight is...so the "wr" for this hack only but incl. the "way to bowser"
Stage RTAs of this kind are not meant to be done, there's just no way to remove them for some single star categories individually.