I guess this could be something that should be reviewed by a case-by-case scenario.

Example, your BotD messed up, you have 30s on your BotD cooldown, but you have a phase jump or something in 20s, which lasts for 15s. RoS would be better as it will give you the most PPS, then you can restart your rotation from scratch.

Then there will be times where Alternative RoS will be much better, where there's a smooth phase transition. EG... A3S with the Limb Split, which is a DPS check. Alternative RoS would be best, as it would get you your maximum PPS much faster.

The Potency difference is so small that it wouldn't really matter that much in the end, as long as the cooldown on your Blood of the Dragon is relatively short.