A little update....
After struggling a bit with Metaseq's boolean function, I ended up disliking the way the wing fairings turn out.
Hence, I did a little re-design by discarding the old fairings and creating a new one. Before doing the boolean operation, I also did some minor streamlining on the fuselage.
Here's how it turned out:
Before calling it a day, I pitched in the landing gears:
Now all that's left are the wheel wells and gear covers!