Dont know if anyone else is having this issue, but i was able to recreate it to make sure before i post.
starting halo 4, and going to Waypoint from there, and then back , wipes my setups on my spartan. I have my br/dmr/assault/light and covy weapons configured, and then poof, all gone, and starting with starter weapons.
it might be me, but its something to look at.
thanks.