Ok, everyone has voted. Here are the results:
Latias: 60.6% Uber (13 OU, 20 Uber, 1 Abstain)
Manaphy: 78.1% Uber (7 OU, 25 Uber, 2 Abstain)
No matter what, Manaphy is uber. But regarding Latias, now we have the interesting dilemma of whether we should actually hold a Stage 3-5 on the Suspect Ladder with just her, even though this is identical to the way Standard has been recognized for a year now. We probably should, even though nobody probably wants to, because it's quite the headscratcher that Latias can be so much more uber with another pokemon than by herself, given that Latias was seen to meet the Support Characteristic, but oh well. We'll decide something shortly.