Wood choices are always subtractive, and the subtraction always starts at the high end. There isn't a wood species that will give you "more" of anything. If you find a guitar that sounds "darker", all that means is the wood or hardware is absorbing more of the high frequencies or the pickups aren't accurately reproducing the string vibrations. Everything is relative, so a lack of high end sounds like an emphasized low end.
Keeping that in mind, you may want to consider putting something together that reproduces the full range possible, then using the filter(s) on the guitar or amp or whatever else is in the signal chain to get rid of the frequencies you don't want in order to achieve the sound you're after. If you build something that can't produce certain sounds for whatever reasons, what are you going to do if you need them?
It's always better to have it and not need it than need it and not have it. You can always filter things out, but if they're not created in the first place, you're out of luck.
All that said, there are few necks quite as sexy to play as an Ebony over Pau Ferro part with stainless frets. It might be a bright(ish) neck, but you can always EQ that out. Meanwhile, you get to play a neck that just makes you smile every time you pick it up. Doesn't hurt that it's a very attractive part as well that'll match damn near anything.