Sorry I didn't see that you posted specs on the areas. I would have to guess that you've got enough room in there to account for more boundary layer losses in area.
I would say though, can't really tell that well from the pics, but I'd try to get the slot to extend so that it covers each runner inlet the same. Ie, it looks like it doesn't cover the start of #1 or the end of #6.
Great idea btw, I was initially skeptical but it makes sense, I think. If I'm thinking about it correctly, the air will slow down in the pre-plenum, thus converting the majority of its dynamic pressure to static pressure. Because this air is going slower, any pressure `holes' will have time to be filled before the air slides through the gap and into the main plenum and onwards to the engine.
If you build this, please install pressure gauges in both plenums, I would love to see that plot.
Dave