[ OT ] A Novel Idea - Help me finish a story about Life , Love , Physics , and Philosophy

Preface: For the main character, I'll be using the name Logan as its origin meaning is'hollow' which depicts the character well, in my mind, in that he is both missing something structurally ( his authenticity ) but is also a vessel waiting to be filled ( with experience ). 
 
... 
 
 Introduction: 
 Logan knew that Dr. Kismet had managed to keep the black matter under control by utilizing technology, so it seemed it was his best bet to pay the Commonwealth a visit. Regrettably, Dr. Kismet needed all the energy devoted to the stabilization of the EDP and could not spare enough energy to power the Blink Line, a teleportation device. Logan had no choice but to suffer a rather unsatisfactory voyage to the mainland on a battered old fishing boat. 
 
 The skipper of the vessel had been informed by Dr. Kismet to take Logan to the mainland. This malodorous fellow of a captain, his name being Rockner, had not seemed to much like land. So much was his distaste for land that he never left his boat, nor did he dock. After being welcomed with a conversation involving Logan and Rockner shouting across open water, Logan was forced to swim out to the boat. 
 
 After charting their voyage to the Commonwealth, they set off from the island. Logan thought of his parents and wondered what part they had in all this, though determined to succeed his nerve wavered as the island disappeared into the black of night. 
 
 Logan is awakened in the night to the sound of rushing water. Thinking the boat was taking on water, Logan put on his life preserver. Exiting from below deck, the skipper had the engine engaged to full power, but they were being drawn still. An isolated rapture of space had created a whirlpool which overpowered the boat's engine and pulled the vessel into itself. As the boat came into contact with the rapture, the vessel was shred like wood into a chipper. Rockner rushed at Logan with a panic. He grabbed Logan's wrist and forced an object into his hand. Logan grasped the thing firmly. The boat and its two passengers were taken into the rapture. 
 
 Logan regained consciousness as he floated among gentle waves. No sign of the boat, not a single piece of it. Rockner was nowhere to be seen. Some sort of marine animal breached the water nearby and spewed water all over Logan. It swam at him and began pushing him. It was gentle, but Logan tried to fight it off until he realized it was pushing him towards land. He pat the creature on its nose and swam towards the rocky shore. 
 
... 
 
 Breakdown: 
 
 I enjoy the idea of the story, it reminds me of Final Fantasy X a bit with the main character also having an unnatural presence in the world. As well as the world itself being divided between the Al Bhed and the followers of Yevon, a technological society and a religious society respectively. 
 
 After my short introduction, I imagine Logan ending up somewhere much closer to the Freelake empire so that he can gain insight he may have otherwise lost by going straight to the Commonwealth. 
 
 As a game, I could see Logan helping Dr. Kismet repair the EDP bit by bit through story progression, which would in turn open up more conveniences for Logan such as teleportation and other gadgets. 
 
 I see the'sinkholes', or'isolated raptures', as chunks of space being sapped away with the affected material world vanishing but the strange force eventually subsiding. The purpose of the raptures might be best revealed towards the end of the story, as it strongly suggests the influence of another dimension. Logan may be the only one who could traverse that dimension given his origin. Also, a world made up of fragments of the world always makes for a cool end game location. 
 
 The object Rockner placed in Logan's hand would be an antimatter fragment that is repelled by the raptures, preventing anyone with one from being sucked in to it. The Freelake people would probably be able to identify it. 
 
 The backstories of the two societies would take to much effort, so I'll have to skip that at least for now. 
 
 Romance is always possible, as Final Fantasy X showed, the relation between star-crossed lovers can be both joyous and heartbreaking. 
 
 Overall, it's not much to add but maybe it'll jump start more.
