Brian,
The main difference is that the F-1X has an effects loop, built-in direct out, and a crossover. The HF level and Frequency knob are for the crossover, so unless you're bi-amping, they don't get used. If it's for live playing, you'd probably want to just run the bass mono into the F-1X.
On the other hand, you could use the F-2B to eq each pickup individually, then combine those channels into an amp and just mic the speaker instead of using a DI.
A third option would be to use the F-2B to eq each pickup and use 2 DI's (one for each channel), either in between the bass and preamp or between the preamp and power amp.
2 F-1X's would work very well, but then you're talking double the money and space. If your power supply doesn't have a mono switch, (I don't remember if they ever made them that way or not), then one F-1X would still work because it has 2 inputs. The hi-gain input (1) switches to lo-gain whenever something is plugged into the lo-gain input(2), so you wouldn't have any gain problems with that setup.
Oh, and have to disagree with Bill. The ultimate stereo setup would be an F-1X with a SF-2 in the effects loop for EACH pickup. It'd only set you back about 3400.00USD or so.
Charles