If you are asking if I would, then the answer is yes, but only because it is a 100% and I'm a huge fan of omastar. I powered up a 98% I caught during the rock event to level 30 from level 26.
If you are asking if you should,then the answer is probably not. Kyogre, Gary and Vape are all better water attackers than omastar.
So if you enjoy using omastar, then it's certainly not a terrible thing to power up, but there are definitely better options out there.