I have had a similar situation for a few years now, as I both play electric and EUB at virtually every gig.
Switching pedal and EQ is definitely the way to do, and my two options have been:
i) Radial Bassbone, which is a great all in one unit
ii) Radial i/o for the switching with a separate programmable eq pedal to give me four preshapes on the fly
Both work well, but I am just in the process of selling off the i/o and eq pedal to go back to a Bassbone.
Cheers
Gareth