Hi there I am playing with this idea and was wondering how you eventually solved it. The idea is to have one clean input and then with an a/b box and a y cable be able to create a second channel into the return. I have been mucking with this tonight and seem to loose some power. Let me know your thoughts.
Boss LS-2 does what you've asked and even more...
Plug in your bass to LS-2 Input,
wire the LS-2 Output to your amp effect return,
wire the LS-2 loop "A" Send to amp front input, wire the amp effect send to the LS-2 Loop "A" Return,
wire your effect pedals (including preamp pedal if you have one) to LS-2 loop "B" send and back to loop "B" Return.
Dial the LS-2 MODE to "→ A → B → BYPASS →" and then:
when you stomp the LS-2 so "A" is lit, you'll be using only your amp's preamp without any interventions from the effect pedals, tweak the "A" LEVEL knob as required,
when you stomp the LS-2 so "B" is lit, you'll be using your effect (preamp) pedals without additional coloring from your amp's preamp, tweak the "B" LEVEL knob as required,
when you stomp the LS-2 so neither A nor B is lit, you'll have a clean channel (you'll be using only your bass [if it has] internal preamp).
Dial the LS-2 MODE to "→ A + B MIX → BYPASS →" for a mix output from the pedals and amp's preamp or a very dry signal from your bass only (w/o any coloration from amp's preamp or pedals).
Many other combinations are possible with the LS-2.