After checking for any signs of light poking through the joins, I levelled off the end of panel 5 and glued on panel 6. I bought a 26" Stanley finish cut saw, and it cuts through MDF like butter, thanks to the new teeth and the long stroke in comparison to the mitre saw I've been using.
I misread the instructions though, and glued panel 6 to the ends of panel 5 and the side. I must have confused myself in a serious way as I made the top 14.5" wide, so there's a 1/4" overlap on each side for the top to rest on the side panels.
Fortunately, the "orange triangle" square came in handy again, as it has a 1/4" lip on one edge. As I glued panel 6 down, I clamped the square to the side panel, butting panel 6 against it, so that it was square, and recessed to that magical 1/4". Schoolboy error I know, but out of the multitude of mistakes it worked out
I'll do the same on the other speaker, so that the horn paths match.
On a completely successful note, I managed to remove the guide board. I had to use a small chisel to pry away at different areas of it, but finally it came off. It was stuck only in a couple of small areas, and so I basically had to tease the top couple of layers of MDF off in those parts, as the glue obviously wasn't going to give in!