I'm going to try and get it to work but it may not have the same functionality.
As far as I know now, if rooms are attached to each other (such as with DD's Open Hatch mod and FM's NewInteriors) then the room colour of the main Control Room seems to dictate the colour for all the rooms attached. This means that you can only have one colour for the night ambient lighting (blue for everything or red for everything) if you can freely move between rooms in shift-F2 mode. Having the Conning tower separate as in the fore-mentioned mods seems to be the only way to have them with different night colours.
I could very well be wrong, and I am going to try and prove myself wrong by getting these same principles to work with the full open conning tower hatch mod (then again I'm no expert
).
But the blue interior should still work with Lucas' mod, there just wont be any red/blue room mixing going on...The wheels are in motion.