I can see with Anno and Higuchi in this, a strong scifi element and strong human characters.
I could easily see a story about a 26 year old woman and 7 year old son who's grandparents (great grand parents) were from Oto Island and witnessed Godzilla's first attack. This woman is trying her best at being an amateur journalist and is primarily thinking mostly of herself while her son is along for the ride. Her husband left her for being overly selfish and she has moved out onto a smaller island so her aunt can help raise her son as she's working on assembling information on a possible case for a big story about illegal nuclear fuel dumping. Possibly one of China's new nuclear subs washes upon a beach in wreckage. Insert international incident here and the UN gets involved, while now with her attention on this, the main character also finds out via BBs boards that two Russians subs have gone missing in the last year years and a few wrecked boats have been discovered exposed to massive radiation. The thing closely resembling it? The original G54 incident. She comes into contact with a poster on one board and gets correspondence about the subject and decides to meet said hacker who goes by the screen name "M-11". She meets with said hacker and gets information that Godzilla is alive and the governments are well aware of this, but keep mum to avoid public terror. On the way back home, she is pursued by agents of the govt and is rescued by several people who turn out to belong to a cult that worship Godzilla. They kidnap her son and transport them to Otot island where they are based and on one night they come onto the beach to witness the rise of Godzilla-and end up being attacked by a titanic, mutant boar (25 meters long) before Godzilla rears his head (although obscured mostly by fog and rain) and slays said boar easily. The rest of the film involves Godzilla vs the military and Japan's recent new weapons the Iron Beetle amphibious tank and the Super- X Delta prototype vehicle. The main character learns that she has to stop being reckless and actually take responsibility for her son and her actions and it turns out a relative of hers is the scientist that helps build a new Oxygen Destroyer that is deployed on land. It fails in killing Godzilla, but kills a large population of civilians. Godzilla is triumphant and plods away feeding off the Iron Beetle and Super X-Delta's nuclear batteries.