Spell correct has been very bad this morning so I made an edit a few posts back.
You don't want two bec supplies, especially switching bec, and supplied from different batteries. There is the possibility of excessive & damaging current flowing out the working bec into the switched-off bec.
The thruster doesn't call for fine low end control. On the contrary...
2.4 GHz radios are error-correcting so you don't need the feature in the thruster's controller.
There is little to no information given on the thruster's controller or remarks on how well it works.
I don't know if the smoker uses oil or is a nebulizer.
If I was asked to work on the boat with the aim to simplify, I would possibly replace the propulsion motor controller with a bec esc. No more than that other than snubber suppression for switches.
I'd prefer to wire a switching bec into the existing Electronize controller (3 wires) but you won't consider that.
I'd also replace the thruster controller with a 9 gram servo & microswitches and supply power from the 12v battery via a power resistor.
I'd replace a lead acid battery with a home made 3s Lithium ion battery but that's my obsessive streak.