I did the calcs.
The dumbass that did
>>47293732 wasted their time because they didn't set the weather to Rain.
Using the Sync Nuke grid for Zekrom and the Thunder grid for Kyogre (both from the Google Doc), I get these numbers.
Zekrom has Electric Terrain, CS2, SE
Kyogre has Electric Terrain, CS2, SE Next (SE), Hoenn Spirit at just 20% for itself, Rain for Shower Surge 3, Thunder Raging Rain 5, and Thunder Paralysis Synergy 1
Both are 40 Gear and 0 Theme Skills
Without SE Next, Zekrom outdamages by a slight amount, since Kyogre will still do mid 8K to mid 9K range damage.