I think you're probably going to be doing a lot of cutting and repositioning, maybe even replacing parts with similar parts that have been bent before installing (maybe even making duplicates out of aluminum foil or cola cans for added effect). I don't think boiling water is going to be getting things soft enough to bend them enough to get to the desired position.
I think chemicals will make the surface sticky and slimy, making the physical manipulation of the parts a mess. Heating with wire will result in hot spots and cause unintended warpage and shrinkage of the plastic parts. Try putting part of a sprue tree on a pan and in an oven, and you'll see what I mean.
I believe someone has already done an example of the Titanic on the ocean floor, and they did an amazing job of it. You may want to do a search to verify. I also think someone has done a similar diorama of the Yamato on the seafloor, and did another amazing job. Search will be your friend here.
Sounds like an interesting project, but I'd probably start with a cheap kit you don't worry about totally-trashing.
Gene Beaird,
Pearland, Texas