I'd imagine those most at risk would be the ones who used an agent or a VPN while in Thailand. Especially if they were in Thailand a long time before they got a visa which can't be applied for inside Thailand.
I don't know mate, everything is new with this visa. Maybe wait and see what happens to others who have done the same. You might have just been unlucky with the IOs upto now.
The problem is people think because it's Evisa application so they don't hand over their passport. That it's alright to travel back in before approval which would be impossible if they applied in person.