It looks to me like you will have no choice on the fuselgage but to either piece it together or put the white over the blue.

If you put the white over thr blue it may show through a little but it should still look good so long as you do it the same over the enitre plane and it all matches.

I used white Monokote over some purlple Ultracoat once. The white was affected slightly but it was still pretty good.

Another thing you can do besides or along with the windex is to acurately mark your trim areas over your base color then use a wookpecker tool or a pin to perforate the base. This will help give trapped air a place to escape and result in fewer bubbles.