First, clear caulk is generally of the variety with silicone in it, and it really stinks, worse than anything else you,ve looked at. And when it gets on stuff it's darn near impossible to remove. The various gel mediums are much more forgiving.
Thanks for the pictures, those are great. I have some constructive criticism (I hope) of that dio so far.
It feels like the scale has been compressed too much. Certainly it needs to be. I did a quick www check because I certainly am no expert on this subject, but the landing Beach on Betio for instance was 30 to 50 yards wide. Which is 18 to 24 inches at your scale and actually pretty doable, or close enough to it. That could give you a chance to include a little bit of a feature like the slope to the water and the flatter part close to the trees.
There's a necessary middle part to your story, at least to me, which would be post embarkation but before attacking the defenders. The NCO's are going to be getting their guys together and checked out before they all go into the trees. If you chose to, that could be right at your tree line.
Could I also suggest that there's kind of two focuses here; the boat and the bunker. I would subliminate the bunker, kind of make the viewer find it. So that the visual sequence goes boat-beach and Marines-bunker.
One last thing and then I will shut up. You should include some evidence of the bigger picture. Of course what immediately comes to mind are casualties from previous waves, but that isn't necessary. But I think it would really bring that point home if you included a bunch of stuff rolling around on the surf that clearly didn't come from this boat.
Thank you for posting the WIP here, and please consider my observations as being friendly.
Bill