I think I'm bypassing the pre altogether when I go through the effects loop because none of the tone shaping effects work when I do this. I'm going to have to try closing the loop as I mentioned in my previous post and plugging my bass into the amp's regular input to see if I can use my amp's sound and only the effect sims from Jamup through the loop.
The end result I'm looking for is a set of presets using only effects but NO amps since I'll have my amp's sound. I will have another set of presets WITH amp sims AND effects for when I travel lighter and go straight to the PA with my Behringer bdi21.
Your doing it right. Go into the effect return from the io dock out to bypass the amps pre. Go into the main input to use as fx only. Both use the bass plugged into the io dock input.