ok, well, this is what I would do. I have added an underwater hull (which needs coolwater inlets and inlets for the waterjets and detailing of the waterjets to complete it), have modified the mast, modified the stern (it is up to you what to put there, you might even add the deck again but then you have to lengthen the helideck about 2 meters) and modified the bridge and hangar.
I tried to stay close to what you said, but within structural limits. underneath the mast is an space of the bridge that is used for the systems, so you walk around the mast base. the hangar is split off from the bridge, and the TT's are moved so that they share the magazine with the helicopter. between bridge and hangar I have added the funnel for the diesel generators, and I kept the turbines in the original position. I moved the VLS forward (16 cell tactical lenght) and removed the CIWS, which were kind of overkill (you could add one on the aft deck though, and you could even add another one in front of the bridge, if it doesn't block visibitily too much.)
I hope you like it, it is not an perfect job (a lot of open weapon positions, your camo had to be removed as it of course was messed up by my fixes) but now you have an fast, well armed ship which could have been build and wouldn't be an nightmare for both construction, maintenance and sailors.
(and yeah, I really like these bridge windows, when you said you hoped upon something special I just had to add something like that xD)